Research Refine Pipeline

---
name: research-refine-pipeline
description: "Run an end-to-end workflow that chains `research-refine` and `experiment-plan`. Use when the user wants a one-shot package from refined method to experiment plan."
allowed-tools: Bash(*), Read, Write, Edit, Grep, Glob, WebSearch, WebFetch, Agent
---

# Research Refine Pipeline: End-to-End Method and Experiment Planning

Refine and concretize: **$ARGUMENTS**

## Overview

Use this skill when the user does not want to stop at a refined method. The goal is to produce a coherent package that includes:

- a problem-anchored, elegant final proposal
- the review history explaining why the method is focused
- a detailed experiment roadmap tied to the paper's claims
- a compact pipeline summary that says what to run next

This skill is one engine step; within this single step it applies the methods of two sibling skills (no second workflow is started, and step status stays with the engine):

1. `research-refine` for method refinement
2. `experiment-plan` for claim-driven validation planning

For stage-specific detail, read these sibling skills only when needed:

- `../research-refine/SKILL.md`
- `../experiment-plan/SKILL.md`

## Core Rule

Do not plan a large experiment suite on top of an unstable method. First stabilize the thesis. Then turn the stable thesis into experiments.

## Default Outputs

- `refine-logs/FINAL_PROPOSAL.md`
- `refine-logs/REVIEW_SUMMARY.md`
- `refine-logs/REFINEMENT_REPORT.md`
- `refine-logs/EXPERIMENT_PLAN.md`
- `refine-logs/EXPERIMENT_TRACKER.md`
- `refine-logs/PIPELINE_SUMMARY.md`

## Workflow

### Phase 0: Triage the Starting Point

- Extract the problem, rough approach, constraints, resources, and target venue.
- Check whether `refine-logs/FINAL_PROPOSAL.md` already exists and still matches the current request.
- If the proposal is missing, stale, or materially different from the current request, run the full `research-refine` stage.
- If the proposal is already strong and aligned, reuse it and jump to experiment planning.
- If in doubt, prefer re-running `research-refine` rather than planning experiments for the wrong method.

### Phase 1: Method Refinement Stage

Apply the `research-refine` method here in this step, keeping its V3 philosophy intact:

- preserve the Problem Anchor
- prefer the smallest adequate mechanism
- keep one dominant contribution
- modernize only when it improves the paper

Exit this stage only when these are explicit:

- the final method thesis
- the dominant contribution
- the complexity intentionally rejected
- the key claims and must-run ablations
- the remaining risks, if any

If the verdict is still `REVISE`, continue into experiment planning only if the remaining weaknesses are clearly documented.

### Phase 2: Planning Gate

Before the experiment stage, write a short gate check:

- What is the final method thesis?
- What is the dominant contribution?
- What complexity was intentionally rejected?
- Which reviewer concerns still matter for validation?
- Is a frontier primitive central, optional, or absent?

If these answers are not crisp, tighten the final proposal first.

### Phase 3: Experiment Planning Stage

Apply the `experiment-plan` method here in this step, grounded in:

- `refine-logs/FINAL_PROPOSAL.md`
- `refine-logs/REVIEW_SUMMARY.md`
- `refine-logs/REFINEMENT_REPORT.md`

Ensure the experiment plan covers:

- the main anchor result
- novelty isolation
- a simplicity or deletion check
- a frontier necessity check if applicable
- run order, budget, and decision gates

### Phase 4: Integration Summary

Write `refine-logs/PIPELINE_SUMMARY.md`:

```markdown
# Pipeline Summary

**Problem**: [problem]
**Final Method Thesis**: [one sentence]
**Final Verdict**: [READY / REVISE / RETHINK]
**Date**: [today]

## Final Deliverables
- Proposal: `refine-logs/FINAL_PROPOSAL.md`
- Review summary: `refine-logs/REVIEW_SUMMARY.md`
- Experiment plan: `refine-logs/EXPERIMENT_PLAN.md`
- Experiment tracker: `refine-logs/EXPERIMENT_TRACKER.md`

## Contribution Snapshot
- Dominant contribution:
- Optional supporting contribution:
- Explicitly rejected complexity:

## Must-Prove Claims
- [Claim 1]
- [Claim 2]

## First Runs to Launch
1. [Run]
2. [Run]
3. [Run]

## Main Risks
- [Risk]:
- [Mitigation]:

## Next Action
- Proceed to `/run-experiment`
```

### Phase 5: Present a Brief Summary to the User

```
Pipeline complete.

Method output:
- refine-logs/FINAL_PROPOSAL.md

Experiment output:
- refine-logs/EXPERIMENT_PLAN.md
- refine-logs/EXPERIMENT_TRACKER.md

Pipeline summary:
- refine-logs/PIPELINE_SUMMARY.md

Best next step:
- /run-experiment
```

## Key Rules

⛔ **File writing strategy (prevent both failure modes):**
- For short content (<150 lines): use the **Write tool** directly (atomic, reliable)
- For long content (>150 lines): use **Write** for the first section (ensures file exists on disk), then append remaining sections with `cat << 'EOF' >> refine-logs/FINAL_PROPOSAL.md`
- **NEVER `end_turn` without producing `refine-logs/FINAL_PROPOSAL.md`** — even if upstream steps had issues, write what you have

产出结构、存在性和最低完整性由 `finish` 按模板中的 `output_contract` 自动核验；修复返回的具体问题，不复制执行验证脚本。

- Do not let the experiment plan override the Problem Anchor.
- Do not widen the paper story after method refinement unless a missing validation block is truly necessary.
- Reuse the same claims across `FINAL_PROPOSAL.md`, `EXPERIMENT_PLAN.md`, and `PIPELINE_SUMMARY.md`.
- Keep the main paper story compact.
- If the method is intentionally simple, defend that simplicity in the experiment plan rather than adding new components.
- If the method uses a modern LLM / VLM / Diffusion / RL primitive, make its necessity test explicit.
- If the method does not need a frontier primitive, say that clearly and avoid forcing one.
- Prefer the staged skills when the user only needs one stage; use this skill for the integrated flow.

## Composing with Other Skills

```
/research-refine-pipeline -> one-shot method + experiment planning
/research-refine   -> method refinement only
/experiment-plan   -> experiment planning only
/run-experiment    -> execution
```