LA-Bench Procedure Generator

Overview

This skill orchestrates a multi-agent workflow to generate detailed experimental procedures from LA-Bench format JSONL input files. Instead of generating procedures in a single step, it coordinates specialized subagents for parsing, reference fetching, generation, validation, refinement, and final output creation.

When to Use This Skill

• When the user requests to generate experimental procedures from LA-Bench data
• When processing files like

  data/public_test.jsonl

  or

  data/private_test_input.jsonl

• When the user asks to "process LA-Bench format" or "generate detailed experimental protocols"

Core Workflow

This skill follows a workflow-based orchestration pattern with six distinct phases:

Phase 0: Initialize

1. Create TODO list using TodoWrite tool to track all phases
2. Verify input/output paths:
   • Input:

     data/public_test.jsonl

     or

     data/private_test_input.jsonl

   • Output:

     outputs/runs/generated_YYYYMMDD_HHMMSS.jsonl

3. Set up workspace for intermediate results if needed

Phase 1: Data Acquisition (Parallel Execution)

Launch multiple Task tools in parallel to maximize efficiency:

Task 1: JSONL Parser Agent

Prompt: "Parse the JSONL file at [path] and extract all entries.
Return a list of all entries with their id, input, and output fields."

• Input: File path to JSONL
• Output: List of all entries
• See: references/agent_specs.md#parser for detailed specifications

Task 2: Reference Fetcher Agent (uses web-reference-fetcher skill)

Prompt: "Use the web-reference-fetcher skill to fetch content from
all reference URLs found in the JSONL entries."

• Uses existing

  web-reference-fetcher

  skill
• Input: List of reference URLs from all entries
• Output: Fetched reference content for each URL
• See: references/agent_specs.md#reference-fetcher

Task 3: Procedure Generator Agent (one per entry or batched)

Prompt: "Generate detailed procedure_steps for entry [id] using:
- instruction
- mandatory_objects
- source_protocol_steps
- fetched reference content
Output format: List of {id: int, text: str} objects"

• Input: Single entry data + fetched references
• Output: Generated procedure_steps
• See: references/agent_specs.md#generator

Phase 2: Quality Validation

Task 4: Checker Agent

Prompt: "Validate the generated procedures against quality criteria
in references/quality_criteria.md. Check:
- Output format compliance
- Logical consistency
- Completeness
Report any issues found."

• Input: All generated procedure_steps
• Output: Validation report with issues (if any)
• See: references/agent_specs.md#checker

Phase 3: Refinement (Conditional)

If validation finds issues:

Task 5: Refiner Agent

Prompt: "Address the following validation issues: [issues].
Regenerate or fix the affected procedure_steps."

• Input: Validation issues + original data
• Output: Corrected procedure_steps
• See: references/agent_specs.md#refiner

Phase 4: Final Output

Task 6: Output Generator Agent

Prompt: "Format all validated procedure_steps into LA-Bench output format
and save to outputs/runs/generated_[timestamp].jsonl.
Each line should be: {id: string, output: {procedure_steps: [...]}}
Use assets/output_schema.json as reference."

• Input: All validated/refined procedure_steps
• Output: Final JSONL file
• See: references/agent_specs.md#output

Important Notes

Data Flow

• All entries in the JSONL are processed (loop through all IDs)
• Data passes between agents through shared workspace or direct handoff
• See references/data_flow.md for detailed inter-agent communication patterns

TODO Management

• Update TODO status after each phase completion
• Mark agents as

  in_progress

  when launching
• Mark as

  completed

  only when phase is fully done

Parallel vs Sequential

• Phase 1 agents run in parallel (use single message with multiple Task calls)
• Phases 2-4 run sequentially (each depends on previous completion)

Error Handling

• If any agent fails, document the failure and retry with adjusted prompt
• If persistent failures occur, consult references/agent_specs.md for troubleshooting

Example Session

See references/example_session.md for a complete walkthrough of a typical execution.

Resources

references/

Documentation loaded into context as needed:

• agent_specs.md: Detailed specifications for each subagent (prompts, inputs, outputs, implementation guidelines)
• data_flow.md: How data passes between agents, workspace structure, and file formats
• example_session.md: Real example of a complete workflow execution with agent interactions

assets/

Files used in final output:

• output_schema.json: JSON schema for the final output format, ensures compliance with LA-Bench expected format