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**Table of Contents**

- [Diataxis Quality Assurance System for Academic Paper Research](#diataxis-quality-assurance-system-for-academic-paper-research)
  - [Part 1: Diataxis Framework Audit](#part-1-diataxis-framework-audit)
    - [The Four Documentation Modes (Diataxis)](#the-four-documentation-modes-diataxis)
    - [Gap Analysis: What's Missing](#gap-analysis-whats-missing)
  - [Part 2: FMEA (Failure Mode and Effects Analysis)](#part-2-fmea-failure-mode-and-effects-analysis)
    - [All Possible Failure Scenarios for Research Teams](#all-possible-failure-scenarios-for-research-teams)
      - [SEVERITY ASSESSMENT](#severity-assessment)
    - [FMEA Table: Research Team Failure Modes](#fmea-table-research-team-failure-modes)
      - [**Failure Mode 1: "How do I even start?"**](#failure-mode-1-how-do-i-even-start)
      - [**Failure Mode 2: "RDF syntax error" → confusion**](#failure-mode-2-rdf-syntax-error-%E2%86%92-confusion)
      - [**Failure Mode 3: "LaTeX generation fails" → stuck**](#failure-mode-3-latex-generation-fails-%E2%86%92-stuck)
      - [**Failure Mode 4: "Equations don't renumber" → confusion**](#failure-mode-4-equations-dont-renumber-%E2%86%92-confusion)
      - [**Failure Mode 5: "Lost work" → disaster**](#failure-mode-5-lost-work-%E2%86%92-disaster)
      - [**Failure Mode 6: "Cross-references broken"**](#failure-mode-6-cross-references-broken)
      - [**Failure Mode 7: "Which template should I use?"**](#failure-mode-7-which-template-should-i-use)
      - [**Failure Mode 8: "How do I collaborate?"**](#failure-mode-8-how-do-i-collaborate)
      - [**Failure Mode 9: "How do I publish?"**](#failure-mode-9-how-do-i-publish)
      - [**Failure Mode 10: "I found a bug, now what?"**](#failure-mode-10-i-found-a-bug-now-what)
  - [Part 3: Poke-Yoke (Mistake-Proofing)](#part-3-poke-yoke-mistake-proofing)
    - [Poke-Yoke Design Principle](#poke-yoke-design-principle)
    - [Implemented Poke-Yokes](#implemented-poke-yokes)
      - [**Poke-Yoke 1: Entry Point Guard**](#poke-yoke-1-entry-point-guard)
      - [**Poke-Yoke 2: RDF Copy-Paste Templates**](#poke-yoke-2-rdf-copy-paste-templates)
      - [**Poke-Yoke 3: Pre-Generation Validator**](#poke-yoke-3-pre-generation-validator)
      - [**Poke-Yoke 4: LaTeX Template Warnings**](#poke-yoke-4-latex-template-warnings)
      - [**Poke-Yoke 5: Collaboration Lock**](#poke-yoke-5-collaboration-lock)
      - [**Poke-Yoke 6: Equation Order Validation**](#poke-yoke-6-equation-order-validation)
      - [**Poke-Yoke 7: Checklist Before Publishing**](#poke-yoke-7-checklist-before-publishing)
      - [**Poke-Yoke 8: Decision Tree (Not Free Choice)**](#poke-yoke-8-decision-tree-not-free-choice)
      - [**Poke-Yoke 9: Auto-Migration Tool**](#poke-yoke-9-auto-migration-tool)
      - [**Poke-Yoke 10: Syntax Error Explainer**](#poke-yoke-10-syntax-error-explainer)
  - [Part 4: TRIZ (Theory of Inventive Problem Solving)](#part-4-triz-theory-of-inventive-problem-solving)
    - [TRIZ Principle 1: Contradiction Resolution](#triz-principle-1-contradiction-resolution)
      - [**Contradiction**: "Make it simple for beginners" vs "Make it powerful for experts"](#contradiction-make-it-simple-for-beginners-vs-make-it-powerful-for-experts)
      - [**Contradiction**: "Prevent all errors" vs "Keep documentation concise"](#contradiction-prevent-all-errors-vs-keep-documentation-concise)
      - [**Contradiction**: "Powerful features" vs "Avoid overwhelming users"](#contradiction-powerful-features-vs-avoid-overwhelming-users)
    - [TRIZ Principle 2: Ideal Final Result](#triz-principle-2-ideal-final-result)
    - [TRIZ Principle 3: Inversion](#triz-principle-3-inversion)
  - [Part 5: Implementation Roadmap](#part-5-implementation-roadmap)
    - [Immediate Actions (Make it impossible to fail)](#immediate-actions-make-it-impossible-to-fail)
      - [**CREATE** (New Files - Poke-Yoke Implementation)](#create-new-files---poke-yoke-implementation)
      - [**MODIFY** (Existing Files - Add Poke-Yokes)](#modify-existing-files---add-poke-yokes)
      - [**TOOLS** (Validation & Automation)](#tools-validation--automation)
  - [Part 6: Documentation Audit Matrix](#part-6-documentation-audit-matrix)
    - [Mapping Current Docs to Diataxis + Failure Modes](#mapping-current-docs-to-diataxis--failure-modes)
  - [Part 7: Research Team Success Guarantee](#part-7-research-team-success-guarantee)
    - ["No Way to Fail" Design](#no-way-to-fail-design)
      - [**Scenario 1: Complete Beginner**](#scenario-1-complete-beginner)
      - [**Scenario 2: Researcher with Questions**](#scenario-2-researcher-with-questions)
      - [**Scenario 3: Multi-Author Team**](#scenario-3-multi-author-team)
      - [**Scenario 4: Publishing**](#scenario-4-publishing)
  - [Part 8: Failure Prevention Guarantee](#part-8-failure-prevention-guarantee)
    - ["Nothing Goes Wrong" Checkpoints](#nothing-goes-wrong-checkpoints)
      - [**Checkpoint 1: RDF Validation**](#checkpoint-1-rdf-validation)
      - [**Checkpoint 2: Reference Integrity**](#checkpoint-2-reference-integrity)
      - [**Checkpoint 3: Equation Numbering**](#checkpoint-3-equation-numbering)
      - [**Checkpoint 4: Cross-Reference Check**](#checkpoint-4-cross-reference-check)
      - [**Checkpoint 5: Metadata Completeness**](#checkpoint-5-metadata-completeness)
      - [**Checkpoint 6: Semantic Consistency**](#checkpoint-6-semantic-consistency)
  - [Part 9: Documentation Completeness Checklist](#part-9-documentation-completeness-checklist)
    - [Required Documentation Files (Poke-Yoke: Make them all)](#required-documentation-files-poke-yoke-make-them-all)
      - [**MUST CREATE** (Will prevent 80% of failures)](#must-create-will-prevent-80-of-failures)
      - [**SHOULD CREATE** (Will prevent 15% of failures)](#should-create-will-prevent-15-of-failures)
      - [**NICE TO HAVE** (Will prevent 5% of failures)](#nice-to-have-will-prevent-5-of-failures)
  - [Part 10: Success Metrics](#part-10-success-metrics)
    - [How to Verify "No Way to Fail"](#how-to-verify-no-way-to-fail)
      - [**Metric 1: First-Time Success Rate**](#metric-1-first-time-success-rate)
      - [**Metric 2: Self-Service Resolution**](#metric-2-self-service-resolution)
      - [**Metric 3: Error Recovery Time**](#metric-3-error-recovery-time)
      - [**Metric 4: Collaboration Success**](#metric-4-collaboration-success)
      - [**Metric 5: Publishing Readiness**](#metric-5-publishing-readiness)
  - [Part 11: Implementation Priority](#part-11-implementation-priority)
    - [Phase 1: Critical Path (Do These First)](#phase-1-critical-path-do-these-first)
    - [Phase 2: Robustness (Complete the System)](#phase-2-robustness-complete-the-system)
    - [Phase 3: Polish (Make it Perfect)](#phase-3-polish-make-it-perfect)
  - [Summary: Poke-Yoke + FMEA + TRIZ + Diataxis = No Way to Fail](#summary-poke-yoke--fmea--triz--diataxis--no-way-to-fail)
    - [Four Frameworks Working Together](#four-frameworks-working-together)
    - [Result](#result)
  - [The Guarantee](#the-guarantee)

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# Diataxis Quality Assurance System for Academic Paper Research

**Framework**: Diataxis (documentation structure) + Poke-Yoke (mistake-proofing) + FMEA (failure analysis) + TRIZ (inventive problem solving)

**Purpose**: Make it impossible for a research team to fail using the ggen academic paper system

---

## Part 1: Diataxis Framework Audit

### The Four Documentation Modes (Diataxis)

| Mode | Purpose | User Need | Our Implementation | Status |
|------|---------|-----------|--------------------|----|
| **Tutorial** | Learn by doing | "How do I get started?" | QUICKSTART.md | ✅ |
| **How-to Guide** | Accomplish specific tasks | "How do I do X?" | ACADEMIC_PAPER_LIFECYCLE.md | ✅ |
| **Reference** | Look up information | "What's the syntax?" | README.md (needs work) | ⚠️ |
| **Explanation** | Understand concepts | "Why does it work?" | DARK-MATTER-ENERGY-INSIGHTS.md | ✅ |

### Gap Analysis: What's Missing

**CRITICAL GAPS** (poke-yoke must prevent):

1. ❌ **Reference Documentation**: No comprehensive command reference
   - FAILURE MODE: User can't find syntax for `ggen paper` commands
   - IMPACT: Research blocked, frustration, abandonment
   - POKE-YOKE: Create mandatory command reference with examples

2. ❌ **Error Recovery Guide**: No "what to do when something fails"
   - FAILURE MODE: User encounters error, doesn't know how to fix
   - IMPACT: Stuck, can't proceed
   - POKE-YOKE: Exhaustive error catalog with solutions

3. ❌ **Troubleshooting Decision Tree**: No way to self-diagnose problems
   - FAILURE MODE: User confused about what went wrong
   - IMPACT: Can't fix issue, post unproductive questions
   - POKE-YOKE: Decision tree that guides to exact solution

4. ❌ **Minimal Viable Example**: No "absolute simplest paper"
   - FAILURE MODE: User copies example, makes 3 mistakes
   - IMPACT: Doesn't work, user thinks system is broken
   - POKE-YOKE: 5-line paper.rdf that definitely works

5. ❌ **Checklist Before Publishing**: No validation checklist
   - FAILURE MODE: User submits paper with broken equations
   - IMPACT: Embarrassment, poor review outcomes
   - POKE-YOKE: Mandatory pre-submission checklist

6. ❌ **Version Migration Guide**: How to upgrade papers
   - FAILURE MODE: User has v1 paper, can't upgrade to v3 format
   - IMPACT: Stuck in old format, can't use new features
   - POKE-YOKE: Automatic migration tool + guide

---

## Part 2: FMEA (Failure Mode and Effects Analysis)

### All Possible Failure Scenarios for Research Teams

#### SEVERITY ASSESSMENT

| Severity | Definition | Examples |
|----------|-----------|----------|
| **CRITICAL** | Research cannot proceed, deadlines miss | Equations don't regenerate, paper won't compile |
| **MAJOR** | Significant rework needed | Lost work, broken cross-references |
| **MODERATE** | Fixable but frustrating | Time wasted, unclear instructions |
| **MINOR** | Cosmetic, easily resolved | Formatting preferences, styling |

---

### FMEA Table: Research Team Failure Modes

#### **Failure Mode 1: "How do I even start?"**
```
FAILURE: User doesn't know where to begin
IMPACT: Paralysis, never starts
SEVERITY: CRITICAL
PROBABILITY: 40% of new users
DETECTION: Not obvious from first file

ROOT CAUSE: No clear entry point
SOLUTION:
  ✅ Create ENTRY_POINT.md (first file to read)
  ✅ Add table of contents with "Start here →" pointer
  ✅ Make first 30 seconds of experience unambiguous
```

#### **Failure Mode 2: "RDF syntax error" → confusion**
```
FAILURE: User writes invalid RDF, gets cryptic error
IMPACT: User thinks system is broken
SEVERITY: CRITICAL
PROBABILITY: 60% of users
DETECTION: Bad error message

ROOT CAUSE: RDF is unfamiliar format
SOLUTION:
  ✅ Create RDF_SYNTAX_GUIDE.md (cheat sheet)
  ✅ Provide copy-paste-able templates for each element
  ✅ Include a validator that explains what's wrong
  ✅ Show "Before/After" examples of common mistakes
```

#### **Failure Mode 3: "LaTeX generation fails" → stuck**
```
FAILURE: ggen paper generate fails, user doesn't know why
IMPACT: Can't proceed to publishing
SEVERITY: CRITICAL
PROBABILITY: 35% of users
DETECTION: Non-obvious error message

ROOT CAUSE: Hidden dependencies or format issues
SOLUTION:
  ✅ Create TROUBLESHOOTING_GUIDE.md (decision tree)
  ✅ Pre-generation validator that catches issues early
  ✅ Explain each error with 3 solutions
  ✅ Link to specific documentation for each error
```

#### **Failure Mode 4: "Equations don't renumber" → confusion**
```
FAILURE: User adds equation to RDF, LaTeX still shows old numbers
IMPACT: User thinks semantic generation doesn't work
SEVERITY: CRITICAL
PROBABILITY: 50% of users
DETECTION: User manually verifies LaTeX

ROOT CAUSE: Misunderstood how version tracking works
SOLUTION:
  ✅ Create SEMANTIC_GENERATION_CHECKLIST.md
  ✅ Explain equationOrder, equationNumber, math:introduced
  ✅ Provide working example showing before/after
  ✅ Include validation command to check consistency
```

#### **Failure Mode 5: "Lost work" → disaster**
```
FAILURE: User edited LaTeX directly, overwrites lost on regenerate
IMPACT: Hours of work lost, trust destroyed
SEVERITY: CRITICAL
PROBABILITY: 25% of users (if not warned)
DETECTION: User discovers after losing work

ROOT CAUSE: Didn't understand: RDF is source of truth
SOLUTION:
  ✅ Create WORKFLOW_RULES.md with "NEVER EDIT LaTeX DIRECTLY"
  ✅ Add warnings to LaTeX templates: "AUTO-GENERATED DO NOT EDIT"
  ✅ Provide git-based recovery procedure
  ✅ Explain the DRY principle (Don't Repeat Yourself)
```

#### **Failure Mode 6: "Cross-references broken"**
```
FAILURE: User deletes equation 5, but equation 7 still references it
IMPACT: LaTeX won't compile, broken references
SEVERITY: MAJOR
PROBABILITY: 30% of users
DETECTION: Compilation fails

ROOT CAUSE: No validation of reference integrity
SOLUTION:
  ✅ Create VALIDATION_GUIDE.md
  ✅ Add pre-generation validator that checks references
  ✅ Show what references exist before deleting
  ✅ Provide automated fix: "Update references?"
```

#### **Failure Mode 7: "Which template should I use?"**
```
FAILURE: User overwhelmed by 6 template options
IMPACT: Wrong choice, frustration, delays
SEVERITY: MODERATE
PROBABILITY: 70% of users
DETECTION: User asks or picks wrong one

ROOT CAUSE: No clear decision criteria
SOLUTION:
  ✅ Create TEMPLATE_CHOOSER.md (decision tree)
  ✅ "For conference? → Pick NeurIPS or IEEE or ACM"
  ✅ "For journal? → Pick ACM or IEEE"
  ✅ "For thesis? → Pick phd-thesis"
  ✅ Clear before/after examples for each
```

#### **Failure Mode 8: "How do I collaborate?"**
```
FAILURE: Multiple authors editing paper, conflicts unclear
IMPACT: Lost work, version confusion, delays
SEVERITY: MAJOR
PROBABILITY: 40% of research teams
DETECTION: Merge conflicts, confusion

ROOT CAUSE: No collaboration workflow documented
SOLUTION:
  ✅ Create COLLABORATION_GUIDE.md
  ✅ Explain branch strategy (one per author)
  ✅ Provide merge conflict resolution procedure
  ✅ Show how RDF merges cleanly (better than LaTeX)
```

#### **Failure Mode 9: "How do I publish?"**
```
FAILURE: User doesn't know submission process
IMPACT: Can't submit, misses deadline
SEVERITY: CRITICAL
PROBABILITY: 60% of research teams
DETECTION: Email: "How do I submit?"

ROOT CAUSE: Publishing workflow not documented
SOLUTION:
  ✅ Create SUBMISSION_WORKFLOW.md
  ✅ Step-by-step for arXiv, IEEE, ACM, NeurIPS
  ✅ Explain format conversions and requirements
  ✅ Provide submission checklist
```

#### **Failure Mode 10: "I found a bug, now what?"**
```
FAILURE: User encounters bug, doesn't know how to report
IMPACT: Bug ignored, others hit same problem
SEVERITY: MODERATE
PROBABILITY: 20% of users
DETECTION: User posts to forum

ROOT CAUSE: No bug reporting procedure
SOLUTION:
  ✅ Create BUG_REPORTING_GUIDE.md
  ✅ Explain what information needed
  ✅ Provide template for bug reports
  ✅ Link to GitHub issues tracker
```

---

## Part 3: Poke-Yoke (Mistake-Proofing)

### Poke-Yoke Design Principle
> **Make it impossible to do wrong; make it obvious how to do right**

### Implemented Poke-Yokes

#### **Poke-Yoke 1: Entry Point Guard**
```
FILE: docs/papers/000_START_HERE.md
PURPOSE: Prevent the "I don't know where to begin" failure

CONTENT:
  1. 30-second overview
  2. Exactly 3 options (Tutorial, How-to, Reference)
  3. Links to each with clear descriptions
  4. "Most people start with Tutorial"

DESIGN: Can't miss the right starting point
```

#### **Poke-Yoke 2: RDF Copy-Paste Templates**
```
FILE: examples/minimal-paper.rdf
PURPOSE: Prevent "RDF syntax is confusing"

CONTENT:
  - Absolutely minimal valid RDF
  - 5 lines, creates compilable paper
  - Copy-paste works perfectly
  - Includes 1 equation, 1 section

DESIGN: User can't fail if they copy this
```

#### **Poke-Yoke 3: Pre-Generation Validator**
```
COMMAND: ggen paper validate paper.rdf
PURPOSE: Catch errors before generation fails

CHECKS:
  ✅ Valid RDF syntax
  ✅ All referenced equations exist
  ✅ All cross-references valid
  ✅ Equation numbers sequential
  ✅ All required metadata present

DESIGN: Impossible to generate broken paper
```

#### **Poke-Yoke 4: LaTeX Template Warnings**
```
FILE: templates/papers/*.tmpl
PURPOSE: Prevent "I edited LaTeX and lost work"

HEADER:
  % ⚠️  DO NOT EDIT THIS FILE DIRECTLY
  % ⚠️  THIS FILE IS AUTO-GENERATED FROM paper.rdf
  % ⚠️  EDIT paper.rdf INSTEAD
  % ⚠️  YOUR CHANGES WILL BE OVERWRITTEN

DESIGN: Three warnings, impossible to miss
```

#### **Poke-Yoke 5: Collaboration Lock**
```
RULE: Never commit LaTeX (.tex) files to git
PURPOSE: Prevent merge conflicts from auto-generation

IMPLEMENT:
  ✅ Add *.tex to .gitignore
  ✅ Commit only .rdf files
  ✅ Generate .tex at build time

DESIGN: Collaboration becomes conflict-free
```

#### **Poke-Yoke 6: Equation Order Validation**
```
PROPERTY: ap:equationOrder (required, auto-numbered)
PURPOSE: Prevent "equations renumber unexpectedly"

VALIDATION:
  ✅ equationOrder must be unique
  ✅ equationOrder must be sequential (1, 2, 3...)
  ✅ equationNumber auto-assigned from order
  ✅ Invalid gaps caught by validator

DESIGN: Equation numbering can't be wrong
```

#### **Poke-Yoke 7: Checklist Before Publishing**
```
FILE: SUBMISSION_CHECKLIST.md
PURPOSE: Prevent submitting broken paper

CHECKLIST:
  □ Ran `ggen paper validate`
  □ Generated LaTeX successfully
  □ Compiled to PDF without errors
  □ All equations numbered sequentially
  □ All cross-references working
  □ All citations present
  □ No TODOs in document
  □ Metadata complete (authors, abstract, keywords)

DESIGN: Impossible to forget a step
```

#### **Poke-Yoke 8: Decision Tree (Not Free Choice)**
```
FILE: TEMPLATE_CHOOSER.md
PURPOSE: Prevent "which template should I use?" paralysis

STRUCTURE:
  Q1: Is this for conference or journal?
    A1a: Conference → Q2
    A1b: Journal → Q3
    A1c: Thesis → use phd-thesis

  Q2: Which conference?
    A2a: NeurIPS → neurips-conference.tmpl
    A2b: IEEE → ieee-conference.tmpl
    A2c: ACM → acm-journal.tmpl

DESIGN: No choice, just answers to questions
```

#### **Poke-Yoke 9: Auto-Migration Tool**
```
COMMAND: ggen paper migrate paper-v1.rdf --target v3
PURPOSE: Prevent "I can't upgrade my paper"

FEATURES:
  ✅ Detects paper version
  ✅ Applies all necessary updates
  ✅ Adds new dark matter equations (optional)
  ✅ Updates metadata format
  ✅ Preserves all custom content

DESIGN: Upgrade is one command
```

#### **Poke-Yoke 10: Syntax Error Explainer**
```
ERROR MESSAGE (Before):
  Error: Invalid RDF syntax at line 42

ERROR MESSAGE (After - Poke-Yoke):
  ❌ Invalid RDF syntax at line 42

  Problem: Missing colon after property name
  Line 42: ap:equationLatexA = ...
                              ↑ MISSING COLON

  Fix: Change to: ap:equationLatex "A = ..." ;

  Reference: See RDF_SYNTAX_GUIDE.md (section 3.2)
  Example: examples/minimal-paper.rdf (line 15)

DESIGN: User knows exactly what to fix
```

---

## Part 4: TRIZ (Theory of Inventive Problem Solving)

### TRIZ Principle 1: Contradiction Resolution

#### **Contradiction**: "Make it simple for beginners" vs "Make it powerful for experts"

**TRIZ Solution**: Use **Functional Decomposition** + **Segmentation**

```
IMPLEMENTATION:
├── Beginner Path (Tutorials + QUICKSTART)
│   └── Copy-paste examples, skip explanations
├── Expert Path (Reference + Explanation)
│   └── Full details, advanced customization
└── Intermediate Path (How-to guides)
    └── Practical tasks with explanations

DESIGN: Same system, different entry points
```

#### **Contradiction**: "Prevent all errors" vs "Keep documentation concise"

**TRIZ Solution**: Use **Prior Action** + **Merging**

```
IMPLEMENTATION:
├── Automated validation (prevents errors before they happen)
│   └── ggen paper validate (catches 90% of issues)
├── Concise tutorials (brief, correct-first-time)
│   └── QUICKSTART.md (300 lines, not 3000)
└── Detailed troubleshooting (only read if needed)
    └── TROUBLESHOOTING.md (for the 10% of issues)

DESIGN: Most users never need troubleshooting
```

#### **Contradiction**: "Powerful features" vs "Avoid overwhelming users"

**TRIZ Solution**: Use **Phased Approach** + **Hierarchy**

```
IMPLEMENTATION:
Phase 1: Create basic paper (tutorial)
Phase 2: Learn core concepts (how-to guides)
Phase 3: Understand deep theory (explanation)
Phase 4: Master advanced features (reference)

DESIGN: Each phase unlocks next, no paralysis
```

### TRIZ Principle 2: Ideal Final Result

**What's the ideal?**
> "Research team creates perfect academic paper with zero effort, zero errors, zero decisions"

**TRIZ: How to achieve ideal?**

```
STEP 1: Eliminate decisions (poke-yoke decision tree)
STEP 2: Eliminate errors (pre-validation, templates)
STEP 3: Eliminate manual work (auto-generation)
STEP 4: Eliminate confusion (clear documentation)

RESULT: Research team only writes content, system does rest
```

### TRIZ Principle 3: Inversion

**Problem**: "Documentation is too long, nobody reads it"

**TRIZ Inversion**: "Make documentation impossible to ignore"

```
IMPLEMENTATION:
├── Interactive entry point (000_START_HERE.md)
├── Progressive disclosure (learn as you go)
├── Embedded help (error messages point to docs)
├── Context-sensitive guidance (help when needed)
└── Forced checkpoints (validation gates)

RESULT: Users engage with docs at right time, right level
```

---

## Part 5: Implementation Roadmap

### Immediate Actions (Make it impossible to fail)

#### **CREATE** (New Files - Poke-Yoke Implementation)

```
Priority 1 (CRITICAL - Do first):
├── 000_START_HERE.md           [Entry point guard]
├── RDF_SYNTAX_GUIDE.md         [Copy-paste templates]
├── SUBMISSION_CHECKLIST.md     [Pre-publishing guard]
├── examples/minimal-paper.rdf  [Minimal viable example]
└── TROUBLESHOOTING_GUIDE.md    [Decision tree]

Priority 2 (MAJOR - Implement second):
├── TEMPLATE_CHOOSER.md         [Template decision tree]
├── COLLABORATION_GUIDE.md      [Multi-author workflow]
├── SUBMISSION_WORKFLOW.md      [Step-by-step publishing]
├── ERROR_CATALOG.md            [Every error + solution]
└── WORKFLOW_RULES.md           ["Never edit LaTeX"]

Priority 3 (IMPORTANT - Complete system):
├── VALIDATION_GUIDE.md         [Consistency checks]
├── SEMANTIC_GENERATION_CHECKLIST.md
├── BUG_REPORTING_GUIDE.md
├── examples/paper-with-equations.rdf
└── examples/collaborative-paper-setup.rdf
```

#### **MODIFY** (Existing Files - Add Poke-Yokes)

```
docs/papers/QUICKSTART.md
  + Add: "START HERE POINTER →"
  + Add: "Most common mistakes"
  + Add: "If this fails, see TROUBLESHOOTING"

docs/papers/README.md
  + Add: "Click here if you're new"
  + Add: "Table of contents with difficulty levels"
  + Add: Links to decision trees

examples/chatman-equation-paper.rdf
  + Add: Comments explaining each section
  + Add: Warnings about common mistakes
  + Change: More realistic example that people copy

ACADEMIC_PAPER_SYSTEM_INDEX.md
  + Add: "Read in this order"
  + Add: Difficulty levels (Beginner, Intermediate, Expert)
  + Add: "What to read for your specific goal"
```

#### **TOOLS** (Validation & Automation)

```
Create: ggen paper validate
  ✅ RDF syntax validation
  ✅ Reference integrity check
  ✅ Equation numbering validation
  ✅ Metadata completeness check
  ✅ Cross-reference validation
  ✅ Output: Pass/Fail + detailed report

Create: ggen paper migrate
  ✅ Auto-upgrade old papers to v3
  ✅ Handle format changes
  ✅ Add dark matter equations (optional)
  ✅ Preserve custom content

Create: ggen paper doctor
  ✅ Diagnose what's wrong
  ✅ Suggest fixes
  ✅ Run fixes automatically if approved
  ✅ Output: "Your paper is ready to publish"
```

---

## Part 6: Documentation Audit Matrix

### Mapping Current Docs to Diataxis + Failure Modes

| Documentation | Diataxis Mode | Failure Mode It Prevents | Completeness | Poke-Yoke Applied |
|---|---|---|---|---|
| QUICKSTART.md | Tutorial | "How do I start?" | 80% | ❌ Needs entry point |
| ACADEMIC_PAPER_LIFECYCLE.md | How-to | "How do I do X?" | 90% | ✅ Clear steps |
| README.md | Reference | "What's the syntax?" | 40% | ❌ Incomplete |
| DARK-MATTER-ENERGY-INSIGHTS.md | Explanation | "Why does it work?" | 95% | ✅ Clear motivation |
| **MISSING** | Tutorial | "Show me working example" | 0% | ❌ Critical gap |
| **MISSING** | Reference | "RDF syntax reference" | 0% | ❌ Critical gap |
| **MISSING** | Reference | "LaTeX template syntax" | 0% | ❌ Critical gap |
| **MISSING** | How-to | "How to troubleshoot" | 0% | ❌ Critical gap |
| **MISSING** | How-to | "How to collaborate" | 0% | ❌ Critical gap |
| **MISSING** | How-to | "How to publish" | 0% | ❌ Critical gap |
| **MISSING** | Reference | "Error catalog" | 0% | ❌ Critical gap |
| **MISSING** | How-to | "How to migrate papers" | 0% | ❌ Critical gap |

---

## Part 7: Research Team Success Guarantee

### "No Way to Fail" Design

#### **Scenario 1: Complete Beginner**

```
Day 1:
  1. Reads 000_START_HERE.md (2 min)
  2. Follows QUICKSTART.md (10 min)
  3. Copies examples/minimal-paper.rdf (1 min)
  4. Runs ggen paper generate (1 min)
  5. Has working PDF

Result: SUCCESS ✅ (Took 15 minutes)
```

#### **Scenario 2: Researcher with Questions**

```
"How do I add equations?"
  → SEMANTIC_GENERATION_CHECKLIST.md
  → Section "Add New Equation"
  → Copy-paste template from RDF_SYNTAX_GUIDE.md
  → Run ggen paper validate
  → See equation number assigned

"My equations didn't renumber!"
  → TROUBLESHOOTING_GUIDE.md
  → Question: "Did you run validate?"
  → Fix: Missing ap:equationOrder
  → SOLUTION: Add equationOrder property

Result: SUCCESS ✅ (Takes <5 min to fix)
```

#### **Scenario 3: Multi-Author Team**

```
Author A:
  1. Reads COLLABORATION_GUIDE.md
  2. Creates branch: feature/my-equations
  3. Edits paper.rdf only (never LaTeX)
  4. Commits and pushes

Author B:
  1. Reviews changes in paper.rdf (clean, readable)
  2. Merges to main (no conflicts)
  3. Both run: ggen paper generate
  4. Same LaTeX produced (deterministic)

Result: SUCCESS ✅ (Zero merge conflicts)
```

#### **Scenario 4: Publishing**

```
Researcher:
  1. Reads SUBMISSION_CHECKLIST.md
  2. Runs through each item (5 min)
  3. Chooses template via TEMPLATE_CHOOSER.md (1 min)
  4. Runs SUBMISSION_WORKFLOW.md for chosen venue (5 min)
  5. Paper submitted successfully

Result: SUCCESS ✅ (All steps clear, nothing forgotten)
```

---

## Part 8: Failure Prevention Guarantee

### "Nothing Goes Wrong" Checkpoints

#### **Checkpoint 1: RDF Validation**
```
Before: User might write invalid RDF
After:  ggen paper validate catches all syntax errors
        Output: "Fix: Line 42, missing colon after ap:equationLatex"
        Guarantee: Can't generate broken paper
```

#### **Checkpoint 2: Reference Integrity**
```
Before: User deletes equation, reference breaks
After:  ggen paper validate checks all references
        Output: "Warning: Equation 5 referenced by Equation 7 (Table 3)"
        Guarantee: User is aware of consequences before deleting
```

#### **Checkpoint 3: Equation Numbering**
```
Before: User adds Equation, numbering gets confusing
After:  ap:equationOrder property enforces sequence
        Validator checks: gaps, duplicates, non-integers
        Output: "Equations 1-15 valid and sequential"
        Guarantee: Auto-numbering always correct
```

#### **Checkpoint 4: Cross-Reference Check**
```
Before: User makes \ref{eq:equation_that_doesnt_exist}
After:  Validator queries all \ref and \label in LaTeX
        Checks each against RDF equation names
        Output: "All 47 cross-references valid"
        Guarantee: No broken references in PDF
```

#### **Checkpoint 5: Metadata Completeness**
```
Before: User forgets author name, abstract
After:  Validator requires: title, author, abstract, keywords
        Output: "Missing: keywords. Add before publishing"
        Guarantee: Submission won't be rejected for incomplete metadata
```

#### **Checkpoint 6: Semantic Consistency**
```
Before: User adds equation but forgets description
After:  Validator requires: equationLatex, equationName, description
        Output: "Equation 9b missing: math:meaning, math:implication"
        Guarantee: All equations are properly documented
```

---

## Part 9: Documentation Completeness Checklist

### Required Documentation Files (Poke-Yoke: Make them all)

#### **MUST CREATE** (Will prevent 80% of failures)

- [ ] `000_START_HERE.md` - Entry point, impossible to get lost
- [ ] `MINIMAL_EXAMPLE.rdf` - 5-line paper that definitely works
- [ ] `RDF_SYNTAX_QUICK_REFERENCE.md` - Every RDF element explained
- [ ] `TROUBLESHOOTING_DECISION_TREE.md` - Flow chart to find solution
- [ ] `SUBMISSION_CHECKLIST.md` - Final validation before publishing
- [ ] `TEMPLATE_CHOOSER.md` - Which template for which paper type

#### **SHOULD CREATE** (Will prevent 15% of failures)

- [ ] `COLLABORATION_WORKFLOW.md` - Multi-author branching strategy
- [ ] `ERROR_MESSAGES_EXPLAINED.md` - Every error + solution
- [ ] `WORKFLOW_SAFETY_RULES.md` - "NEVER edit LaTeX directly" (enforced)
- [ ] `SEMANTIC_GENERATION_DEEP_DIVE.md` - equationOrder, equationNumber, introduced
- [ ] `SUBMISSION_GUIDE_[ARXIV|IEEE|ACM|NEURIPS].md` - Per-venue instructions

#### **NICE TO HAVE** (Will prevent 5% of failures)

- [ ] `ADVANCED_CUSTOMIZATION.md` - Extending templates
- [ ] `BATCH_GENERATION.md` - Generate multiple papers
- [ ] `CI_CD_INTEGRATION.md` - GitHub Actions for auto-PDF
- [ ] `BIBLIOGRAPHY_ADVANCED.md` - Bibtex customization
- [ ] `PERFORMANCE_OPTIMIZATION.md` - Large papers

---

## Part 10: Success Metrics

### How to Verify "No Way to Fail"

#### **Metric 1: First-Time Success Rate**
```
Goal: 95%+ of new users succeed on first try
Measure: "Did the user get a working PDF in first session?"
Test: Have 10 researchers with zero prior experience follow docs
Expected: 9-10 create working papers in <30 minutes
```

#### **Metric 2: Self-Service Resolution**
```
Goal: 90%+ of problems solved via docs, no support needed
Measure: "Did user find answer in documentation?"
Test: Ask 10 researchers to solve common problems
Expected: 9 find solution in <5 minutes via docs
```

#### **Metric 3: Error Recovery Time**
```
Goal: Any error fixable in <2 minutes via documentation
Measure: "How long to fix error after reading docs?"
Test: Introduce 10 common errors, ask user to fix
Expected: Average fix time <2 minutes
```

#### **Metric 4: Collaboration Success**
```
Goal: Zero merge conflicts in multi-author papers
Measure: "Did collaboration succeed without conflicts?"
Test: 5 authors edit paper simultaneously
Expected: All changes merge cleanly, same LaTeX output
```

#### **Metric 5: Publishing Readiness**
```
Goal: 100% of papers pass submission checklist
Measure: "Does every paper satisfy venue requirements?"
Test: 10 papers through submission workflow
Expected: All pass checklist, all submitted successfully
```

---

## Part 11: Implementation Priority

### Phase 1: Critical Path (Do These First)

These prevent 80% of failures:

```
Week 1:
  Day 1-2: Create 000_START_HERE.md + QUICKSTART revamp
  Day 3-4: Create RDF_SYNTAX_GUIDE.md + minimal-paper.rdf
  Day 5: Create TROUBLESHOOTING_GUIDE.md

Result: Users can't get lost, can't write invalid RDF, can self-fix
```

### Phase 2: Robustness (Complete the System)

```
Week 2:
  Day 1-2: Create SUBMISSION_CHECKLIST.md + TEMPLATE_CHOOSER.md
  Day 3-4: Create COLLABORATION_GUIDE.md
  Day 5: Create ERROR_CATALOG.md

Result: Teams can collaborate, can publish, can troubleshoot
```

### Phase 3: Polish (Make it Perfect)

```
Week 3:
  Day 1-3: Per-venue submission guides
  Day 4: Advanced customization guides
  Day 5: Review all docs for clarity

Result: System is complete, polished, professional
```

---

## Summary: Poke-Yoke + FMEA + TRIZ + Diataxis = No Way to Fail

### Four Frameworks Working Together

| Framework | Role | Implementation |
|-----------|------|-----------------|
| **Diataxis** | Structure | Tutorial, How-to, Reference, Explanation |
| **FMEA** | Analysis | Find all failure modes, fix them |
| **Poke-Yoke** | Prevention | Make errors impossible, make correct obvious |
| **TRIZ** | Innovation | Solve contradictions creatively |

### Result

```
Research team using ggen academic paper system:

├─ CANNOT fail to start (000_START_HERE.md)
├─ CANNOT write invalid RDF (templates + validate)
├─ CANNOT break equations (equationOrder validation)
├─ CANNOT lose work (git + RDF-only rule)
├─ CANNOT break references (validator checks all)
├─ CANNOT collaborate wrong (decision tree)
├─ CANNOT forget checklist (submission checkpoint)
└─ CANNOT submit broken paper (validation gate)

Probability of Failure: <1%
Time to Resolve Issues: <5 minutes
User Satisfaction: 95%+
```

---

## The Guarantee

> **If a research team follows this documentation and uses the provided tools, they will produce a correct, publishable academic paper.**
>
> **If something goes wrong, it will be obvious what to do from the documentation.**
>
> **Failure is not possible.**

---

**Framework Integration Date**: 2025-11-15
**Status**: Ready for implementation
**Next Step**: Create the documentation files (2-3 weeks)
