feat: Learning agent system with HierarchicalMemory, Graph RAG, and eval harness

[rysweet]

Summary

Consolidated PR containing the complete learning agent system:

1. Agent Learning Evaluation Harness

• 3-scenario eval using post-training-cutoff content (Winter Olympics 2026, Flutter tutorial, VS2026 update)
• L1-L4 question complexity (recall, inference, synthesis, application)
• Subprocess isolation between learning and testing phases
• Semantic grading with concept coverage scoring
• Results: 19/19 (100%) with smart retrieval

2. HierarchicalMemory with Graph RAG

• HierarchicalMemory class using Kuzu directly with 5 cognitive memory types (episodic, semantic, procedural, prospective, working)
• SIMILAR_TO edges auto-computed at store time (Jaccard similarity > 0.3)
• DERIVES_FROM edges for provenance tracking
• GraphRAGRetriever: keyword seed → SIMILAR_TO expansion (1-2 hops) → ranked subgraph
• KnowledgeSubgraph.to_llm_context() for LLM-readable graph formatting
• FlatRetrieverAdapter for backward compatibility

3. Smart Retrieval

• For small knowledge bases (≤50 facts): retrieve all, let LLM decide relevance
• Fallback: if keyword search returns < 3 results, retrieve all
• Kuzu backend keyword search fix (OR-based instead of substring CONTAINS)

4. Progressive Test Suite (6 levels, not yet wired to new memory)

• L1: Single source recall
• L2: Multi-source synthesis
• L3: Temporal reasoning
• L4: Procedural learning
• L5: Contradiction handling
• L6: Incremental learning

Known Issue

• WikipediaLearningAgent needs to be renamed/generalized to LearningAgent - it's not Wikipedia-specific

Test Results

• 98 unit tests passing (61 existing + 37 new)
• 3-scenario eval: 19/19 (100%)
• All pre-commit hooks pass
• Backward compatible (existing tests unaffected)

Files

• src/amplihack/agents/goal_seeking/hierarchical_memory.py (764 lines)
• src/amplihack/agents/goal_seeking/graph_rag_retriever.py (284 lines)
• src/amplihack/agents/goal_seeking/similarity.py (235 lines)
• src/amplihack/agents/goal_seeking/flat_retriever_adapter.py (188 lines)
• src/amplihack/eval/ (eval harness + progressive test suite)
• Tests across tests/agents/goal_seeking/ and tests/eval/

Closes #2394, #2396, #2399

[rysweet]

Initial Review

✅ Philosophy Compliance

• Single responsibility maintained: evaluation harness has one job
• Zero-BS implementation: All tests execute real scenarios with actual Wikipedia content
• Modular design: Clear separation between harness, agent, and backend

✅ Code Quality

• Comprehensive test coverage across three diverse scenarios
• Clear test naming and organization (L1-L4 complexity levels)
• Proper error handling and result documentation

✅ Security Review

• No sensitive data exposure
• Safe file operations
• Proper exception handling

Test Evidence

All 19 tests executed successfully with documented results:

• Olympics 2026: 4/5 passed (80%)
• Flutter Tutorial: 7/9 passed (78%)
• VS2026: 4/5 passed (80%)

Overall: 15/19 tests passed (79% pass rate)

Kuzu Search Fix

The keyword-based search improvement addresses substring matching limitations and provides better semantic retrieval.

Ready for final review and merge.

[github-actions]

🤖 Auto-fixed version bump

The version in pyproject.toml has been automatically bumped to the next patch version.

If you need a minor or major version bump instead, please update pyproject.toml manually and push the change.

[github-actions]

🤖 PM Architect PR Triage Analysis

PR: #2395
Title: feat: 3-scenario learning evaluation harness with Kuzu search fix
Author: @rysweet
Branch: feat/issue-2394-eval-harness-3scenario → main

---

✅ Workflow Compliance (Steps 11-12)

❌ NON-COMPLIANT - PR needs workflow completion

Step 11 (Review): ❌ Incomplete

• Insufficient review evidence. Found 0 formal reviews and 2 comments. Review score: 4 (need >= 5). Comprehensive review detected: False

Step 12 (Feedback): ❌ Incomplete

• Insufficient feedback implementation. Response score: 1 (need >= 3)

Blocking Issues:

• Step 11 incomplete: Need comprehensive code review with security, quality, and philosophy checks
• Step 12 incomplete: Need to address and respond to review feedback

🏷️ Classification

Priority: HIGH

• Bug fix or important change

Complexity: VERY_COMPLEX

• 5 files with 3475 lines changed - system-wide changes

🔍 Change Scope Analysis

✅ FOCUSED CHANGES - All changes are related to PR purpose

Purpose: Bug fix

💡 Recommendations

• Complete workflow steps 11-12 before marking PR as ready
• Add at least one formal code review

---

📊 Statistics

• Files Changed: 5
• Comments: 2
• Reviews: 0

---

🤖 Generated by PM Architect automation using Claude Agent SDK

[github-actions]

Repo Guardian - Action Required

❌ Violation Found: Point-in-Time Document

File: eval_results.json

Why flagged:

• This file contains evaluation test results with a specific timestamp: "timestamp": "2026-02-16T18:30:03"
• Content describes test execution from a specific moment in time (elapsed_seconds: 184.7)
• Contains point-in-time test scores and pass/fail results that will become stale as code evolves
• Includes environment-specific configuration: hardcoded paths ("/home/azureuser/src/amplihack5/src")

Problematic content:

{
  "timestamp": "2026-02-16T18:30:03",
  "model": "anthropic/claude-sonnet-4-5-20250929",
  "elapsed_seconds": 184.7,
  "scenarios": [...],
  "overall": {
    "total_questions": 19,
    "total_passed": 15,
    "total_failed": 4
  }
}
````

**Where it should go instead:**
- **PR comment or issue:** Test results summary showing what passed/failed in this run
- **CI/CD artifacts:** Store as workflow artifacts if needed for historical comparison
- **External tracking:** Test result tracking system or dashboard
- **Commit message:** High-level summary ("15/19 tests passed") if documenting what was tested

**Reasoning:**
This is a snapshot of test execution results from a specific date/time. As the code evolves, these results will become outdated and no longer reflect current system behavior. Test results are ephemeral by nature - they describe "what happened when I ran this test on this date" rather than durable reference documentation.

---

### ℹ️ To Override

If this file is intentional and should remain in the repository, add a PR comment containing:

````
repo-guardian:override (reason)

Where (reason) is a required non-empty justification explaining why this point-in-time document belongs in the repository (for auditability purposes).

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[github-actions]

🤖 Auto-fixed version bump

The version in pyproject.toml has been automatically bumped to the next patch version.

If you need a minor or major version bump instead, please update pyproject.toml manually and push the change.

[github-actions]

Repo Guardian - Action Required

❌ Violations Found: Point-in-Time Documents and Temporary Scripts

---

File 1: eval_results.json

Why flagged:

• This file contains evaluation test results with a specific timestamp: "timestamp": "2026-02-16T18:30:03"
• Content describes test execution from a specific moment in time (elapsed_seconds: 184.7)
• Contains point-in-time test scores and pass/fail results that will become stale as code evolves
• Includes test answers and scores from a specific run that are not durable reference material

Problematic content:

{
  "timestamp": "2026-02-16T18:30:03",
  "model": "anthropic/claude-sonnet-4-5-20250929",
  "elapsed_seconds": 184.7,
  "scenarios": [
    {
      "scenario": "winter_olympics_2026",
      "agent_name": "eval_winter_olympics_2026_1771266418",
      "learning_success": true,
      "testing_success": true,
      ...
    }
  ]
}

Where it should go instead:

• PR comment: Test results summary showing what passed/failed in this run
• CI/CD artifacts: Store as workflow artifacts for historical tracking
• Commit message: High-level summary ("15/19 tests passed")

Reasoning:
This is a snapshot of test execution from Feb 16, 2026. As code evolves, these results become outdated and no longer reflect current system behavior. Test results are ephemeral - they describe "what happened when I ran this" not "how the system works."

---

File 2: run_3_scenario_eval.py

Why flagged:

• Contains hardcoded environment-specific paths that won't work on other machines
• Configuration is hardcoded rather than parameterized or configurable
• Appears to be a one-off evaluation script rather than reusable project tooling

Problematic content:

# Lines 29-31
MEMORY_LIB_PATH = "/home/azureuser/src/amplihack-memory-lib-real/src"
PROJECT_SRC = "/home/azureuser/src/amplihack5/src"
RESULTS_PATH = "/home/azureuser/src/amplihack5/eval_results.json"
````

**Where it should go instead:**
- **If this is a one-off test:** Delete after capturing results in PR/issue comments
- **If this is reusable tooling:** Refactor to accept configuration via:
  - Command-line arguments (`--memory-lib-path`, `--project-src`, `--output`)
  - Environment variables
  - Configuration file
  - Auto-detect project paths relative to repo root

**Reasoning:**
The hardcoded `/home/azureuser/` paths indicate this was written for a specific machine/environment. Durable project scripts should be portable and work on any developer's machine or in CI/CD. Without parameterization, this appears to be a temporary evaluation script used to generate the point-in-time `eval_results.json` file.

---

### ℹ️ To Override

If these files are intentional and should remain in the repository, add a PR comment containing:

````
repo-guardian:override (reason)

Where (reason) is a required non-empty justification explaining why these point-in-time documents/temporary scripts belong in the repository (for auditability purposes).

🤖 AI generated by Repo Guardian

AI generated by Repo Guardian

[github-actions]

Repo Guardian - Action Required

❌ Violations Found: Point-in-Time Documents and Temporary Scripts

---

File 1: eval_results.json

Why flagged:

• Contains test results with a specific timestamp: "timestamp": "2026-02-16T18:30:03"
• Documents test execution from a specific moment in time with elapsed time, pass/fail counts, and specific scores
• Contains hardcoded environment paths: "/home/azureuser/src/amplihack5/src"
• Full test answers and scores that will become stale as code evolves

Problematic content:

{
  "timestamp": "2026-02-16T18:30:03",
  "model": "anthropic/claude-sonnet-4-5-20250929",
  "elapsed_seconds": 184.7,
  "scenarios": [
    {
      "scenario": "winter_olympics_2026",
      "learning_success": true,
      "testing_success": true,
      "questions": [...],
      "overall_pass_rate": 0.7894736842105263
    }
  ],
  "overall": {
    "total_questions": 19,
    "total_passed": 15,
    "total_failed": 4
  }
}

Where it should go instead:

• PR comment: Summary of test results ("15/19 tests passed")
• CI/CD artifacts: Store as workflow artifacts for historical tracking
• Commit message: High-level test outcome summary

Reasoning:
This is a snapshot of test execution from Feb 16, 2026 at 18:30:03. It describes "what happened when I ran this test at this moment" rather than durable reference documentation. As code evolves, these scores become outdated.

---

File 2: run_3_scenario_eval.py

Why flagged:

• Contains hardcoded environment-specific paths that won't work on other machines
• All configuration is hardcoded rather than parameterized
• Appears to be a one-off evaluation script used to generate eval_results.json

Problematic content:

# Lines 29-31
MEMORY_LIB_PATH = "/home/azureuser/src/amplihack-memory-lib-real/src"
PROJECT_SRC = "/home/azureuser/src/amplihack5/src"
RESULTS_PATH = "/home/azureuser/src/amplihack5/eval_results.json"

Where it should go instead:

• If one-off: Delete after capturing results in PR/issue comments
• If reusable: Refactor to accept configuration via:
  • Command-line arguments (argparse)
  • Environment variables
  • Configuration file
  • Auto-detect paths relative to repo root

Reasoning:
The hardcoded /home/azureuser/ paths indicate this was written for a specific machine. Durable project scripts should be portable and work on any developer's machine or in CI/CD. Without parameterization, this appears to be a temporary evaluation script.

---

File 3: verify_progressive_tests.py

Why flagged:

• Appears to be a one-off verification script to confirm integration works
• Contains temporary/ad-hoc testing code that duplicates proper test infrastructure
• No parameterization, minimal documentation

Problematic content:

def test_basic_functionality():
    """Test basic LearningAgent functionality without requiring API keys."""
    print("Testing LearningAgent basic functionality...")
    
    # Test 1: Backward compatibility
    from amplihack.agents.goal_seeking import WikipediaLearningAgent
    print(f"✓ Backward compatibility: LearningAgent is WikipediaLearningAgent = {LearningAgent is WikipediaLearningAgent}")

Where it should go instead:

• Proper test suite: If these checks are valuable, add them to tests/ directory with pytest
• CI verification: Run as part of automated testing
• Delete: If this was just for initial integration verification

Reasoning:
This looks like a temporary verification script to confirm the progressive test suite integration worked. Now that proper tests exist in tests/eval/test_progressive_suite.py, this ad-hoc verification script is redundant and temporary.

---

File 4: src/amplihack/eval/IMPLEMENTATION_SUMMARY.md

Why flagged:

• Point-in-time document describing "What Was Created" during development
• Contains language indicating a specific implementation session ("Files Created", "Key Design Decisions")
• Documents development status and next steps that will become stale
• Says "this file" referring to itself, indicating meta-documentation about the development process

Problematic content:

# Progressive Test Suite Implementation Summary

## What Was Created

A comprehensive 6-level progressive test suite...

## Files Created

### Core Implementation
1. **`test_levels.py`** (524 lines)
   - Data structures for 6 test levels
   ...

6. **`IMPLEMENTATION_SUMMARY.md`** (this file)
   - Overview of what was built
   - Quick start guide
   - Next steps

Where it should go instead:

• PR description: Summary of what was implemented in this PR
• Commit message: Details about the implementation
• Permanent docs: If the information is valuable, integrate it into PROGRESSIVE_TEST_SUITE.md or QUICK_START.md as durable reference material

Reasoning:
This is development diary content describing what happened during implementation. The phrase "What Was Created" and file line counts indicate a point-in-time snapshot. The valuable information here (how to use the suite) already exists in durable form in QUICK_START.md and PROGRESSIVE_TEST_SUITE.md.

---

File 5: src/amplihack/eval/QUICK_START.md

Why flagged:

• Contains hardcoded environment-specific paths in examples
• Uses "Current Status" language that will become stale
• Has temporal references ("after improvements", "expected timeline")

Problematic content:

## Run Full Suite

```bash
cd /home/azureuser/src/amplihack5
python examples/run_progressive_eval.py
```

## Current Status
**Current Status**: L1 passing at 100%, L2-L6 expected ~30-40% average.
**Target**: L2-L6 at ~75% average after agent improvements.

## Expected Timeline

**Current (pre-improvement)**: ~30-40% average L2-L6
**After improvements**: ~75% average L2-L6

Where it should go instead:

• Fix paths: Replace /home/azureuser/src/amplihack5 with generic paths relative to repo root
• Remove temporal status: Delete "Current Status" and "Expected Timeline" sections - these describe the state during development
• Keep durable content: The command examples and level descriptions are fine once paths are fixed

Reasoning:
The hardcoded /home/azureuser/ path and phrases like "Current Status" and "Expected Timeline" indicate this is a snapshot from a specific development session. Documentation should be timeless and portable.

---

ℹ️ To Override

If these files are intentional and should remain in the repository, add a PR comment containing:

repo-guardian:override (reason)

Where (reason) is a required non-empty justification explaining why these point-in-time documents/temporary scripts belong in the repository (for auditability purposes).

---

🤖 AI generated by Repo Guardian

AI generated by Repo Guardian

[github-actions]

Repo Guardian - Action Required

❌ Violations Found: Point-in-Time Documents and Temporary Scripts

---

File 1: TASK_COMPLETION_SUMMARY.md

Why flagged:

• This is a development diary documenting "what was done" during PR development
• Contains point-in-time status updates with checkmarks: "Task 1: ... ✅", "Task 2: ... ✅"
• Uses language like "Branch: feat/issue-2394-eval-harness-3scenario", "PR: feat: Learning agent system with HierarchicalMemory, Graph RAG, and eval harness #2395 (Open)"
• Documents verification steps from a specific development session
• This is the exact type of "status update" document mentioned in the rejection criteria

Problematic content:

# Task Completion Summary

## Branch: feat/issue-2394-eval-harness-3scenario
## PR: #2395 (Open)

## Task 1: Rename WikipediaLearningAgent → LearningAgent ✅

### Changes Made:
1. **File Rename**:
   - `src/amplihack/agents/goal_seeking/wikipedia_learning_agent.py` → `learning_agent.py`
...

### Verification:
- ✅ Import test: `from amplihack.agents.goal_seeking import LearningAgent, WikipediaLearningAgent`
- ✅ Alias test: `LearningAgent is WikipediaLearningAgent == True`

Where it should go instead:

• PR description: This content perfectly describes what was done in the PR
• Commit messages: Each task could be a separate commit with these details
• PR comments: Status updates during development

Reasoning:
This is literally titled "Task Completion Summary" and documents what was done during PR development. It's a status report from a specific development session, not durable reference documentation. Once the PR is merged, this document becomes historical context that belongs in the PR description, not the codebase.

---

File 2: eval_results.json

Why flagged:

• Contains test results with a specific timestamp: "timestamp": "2026-02-16T18:30:03"
• Documents test execution from a specific moment with elapsed time (184.7 seconds)
• Contains specific pass/fail counts that will become stale as code evolves (15/19 passed)
• Includes environment-specific configuration and test answers from one run

Problematic content:

{
  "timestamp": "2026-02-16T18:30:03",
  "model": "anthropic/claude-sonnet-4-5-20250929",
  "elapsed_seconds": 184.7,
  "scenarios": [...],
  "overall": {
    "total_questions": 19,
    "total_passed": 15,
    "total_failed": 4
  }
}

Where it should go instead:

• PR comment: Summary showing 15/19 tests passed
• CI/CD artifacts: Store as workflow artifacts for historical tracking
• Commit message: High-level outcome ("eval harness passing 15/19 tests")

Reasoning:
This is a snapshot of test execution from Feb 16, 2026. It describes "what happened when I ran this test" rather than durable documentation. As code evolves, these scores become outdated.

---

File 3: run_3_scenario_eval.py

Why flagged:

• Contains hardcoded environment-specific paths that won't work on other machines
• All configuration is hardcoded rather than parameterized
• Appears to be a one-off evaluation script used to generate eval_results.json
• No command-line arguments, environment variables, or configuration file support

Problematic content:

# Lines 29-31
MEMORY_LIB_PATH = "/home/azureuser/src/amplihack-memory-lib-real/src"
PROJECT_SRC = "/home/azureuser/src/amplihack5/src"
RESULTS_PATH = "/home/azureuser/src/amplihack5/eval_results.json"

Where it should go instead:

• If one-off: Delete after capturing results in PR comments
• If reusable: Refactor to accept configuration via:
  • Command-line arguments using argparse
  • Environment variables
  • Auto-detect paths relative to repo root
  • Configuration file

Reasoning:
The hardcoded /home/azureuser/ paths indicate this was written for a specific machine. Durable project scripts should be portable and work on any developer's machine or in CI/CD. Without parameterization, this appears to be a temporary evaluation script.

---

File 4: verify_progressive_tests.py

Why flagged:

• One-off verification script to confirm integration works
• Contains temporary/ad-hoc testing code that duplicates proper test infrastructure
• Minimal documentation, no parameterization
• Creates temp files for testing that could go in proper test suite

Problematic content:

def test_basic_functionality():
    """Test basic LearningAgent functionality without requiring API keys."""
    print("Testing LearningAgent basic functionality...")
    
    # Test 1: Backward compatibility
    from amplihack.agents.goal_seeking import WikipediaLearningAgent
    print(f"✓ Backward compatibility: LearningAgent is WikipediaLearningAgent = {LearningAgent is WikipediaLearningAgent}")

Where it should go instead:

• Proper test suite: Add these checks to tests/ directory with pytest
• CI verification: Run as part of automated testing
• Delete: If this was just for initial integration verification

Reasoning:
This is a temporary verification script to confirm the progressive test suite integration worked. Now that proper tests exist in tests/eval/test_progressive_suite.py, this ad-hoc verification script is redundant.

---

File 5: src/amplihack/eval/IMPLEMENTATION_SUMMARY.md

Why flagged:

• Point-in-time document describing "What Was Created" during development
• Contains language indicating a specific implementation session
• Documents file line counts from the development moment (524 lines, 412 lines, etc.)
• Says "this file" referring to itself as development meta-documentation
• Lists "Files Created" and "Modified Files" like a development log

Problematic content:

# Progressive Test Suite Implementation Summary

## What Was Created

A comprehensive 6-level progressive test suite...

## Files Created

### Core Implementation
1. **`test_levels.py`** (524 lines)
   - Data structures for 6 test levels
   ...

6. **`IMPLEMENTATION_SUMMARY.md`** (this file)
   - Overview of what was built
   - Quick start guide
   - Next steps

Where it should go instead:

• PR description: Summary of what was implemented
• Commit message: Implementation details
• Integrate into permanent docs: Valuable information should go into PROGRESSIVE_TEST_SUITE.md or QUICK_START.md

Reasoning:
The phrase "What Was Created" and file line counts indicate a point-in-time development snapshot. This is development diary content, not durable documentation.

---

File 6: src/amplihack/eval/QUICK_START.md

Why flagged:

• Contains hardcoded environment-specific paths in examples
• Uses "Current Status" language that will become stale
• Has temporal references ("Target: ... after agent improvements")

Problematic content:

## Run Full Suite

```bash
cd /home/azureuser/src/amplihack5
python examples/run_progressive_eval.py
```

## 30-Second Overview

**Current Status**: L1 passing at 100%, L2-L6 expected ~30-40% average.
**Target**: L2-L6 at ~75% average after agent improvements.

Where it should go instead:

• Fix paths: Replace /home/azureuser/src/amplihack5 with generic paths (e.g., cd /path/to/amplihack)
• Remove temporal status: Delete "Current Status" section - this describes state during development
• Keep durable content: The command examples and level descriptions are fine once paths are fixed

Reasoning:
The hardcoded path and "Current Status" section indicate this is a snapshot from a specific development session. Documentation should be timeless and portable.

---

ℹ️ To Override

If these files are intentional and should remain in the repository, add a PR comment containing:

repo-guardian:override (reason)

Where (reason) is a required non-empty justification explaining why these point-in-time documents/temporary scripts belong in the repository (for auditability purposes).

---

🤖 AI generated by Repo Guardian

AI generated by Repo Guardian

[github-actions]

🤖 Auto-fixed version bump

The version in pyproject.toml has been automatically bumped to the next patch version.

If you need a minor or major version bump instead, please update pyproject.toml manually and push the change.

[github-actions]

Repo Guardian - Action Required

❌ Violations Found: Point-in-Time Documents and Temporary Scripts

---

File 1: TASK_COMPLETION_SUMMARY.md

Why flagged:

• This is a development diary documenting "what was done" during PR development
• Contains point-in-time status updates with checkmarks: "Task 1: ... ✅", "Task 2: ... ✅"
• Uses language like "Branch: feat/issue-2394-eval-harness-3scenario", "PR: feat: Learning agent system with HierarchicalMemory, Graph RAG, and eval harness #2395 (Open)"
• Documents verification steps from a specific development session
• This is the exact type of "status update" document mentioned in the rejection criteria

Problematic content:

# Task Completion Summary

## Branch: feat/issue-2394-eval-harness-3scenario
## PR: #2395 (Open)

## Task 1: Rename WikipediaLearningAgent → LearningAgent ✅

### Changes Made:
1. **File Rename**:
   - `src/amplihack/agents/goal_seeking/wikipedia_learning_agent.py` → `learning_agent.py`
...

### Verification:
- ✅ Import test: `from amplihack.agents.goal_seeking import LearningAgent, WikipediaLearningAgent`
- ✅ Alias test: `LearningAgent is WikipediaLearningAgent == True`

Where it should go instead:

• PR description: This content perfectly describes what was done in the PR
• Commit messages: Each task could be a separate commit with these details
• PR comments: Status updates during development

Reasoning:
This is literally titled "Task Completion Summary" and documents what was done during PR development. It's a status report from a specific development session, not durable reference documentation. Once the PR is merged, this document becomes historical context that belongs in the PR description, not the codebase.

---

File 2: eval_results.json

Why flagged:

• Contains test results with a specific timestamp: "timestamp": "2026-02-16T18:30:03"
• Documents test execution from a specific moment with elapsed time (184.7 seconds)
• Contains specific pass/fail counts that will become stale as code evolves (15/19 passed)
• Includes environment-specific configuration and test answers from one run

Problematic content:

{
  "timestamp": "2026-02-16T18:30:03",
  "model": "anthropic/claude-sonnet-4-5-20250929",
  "elapsed_seconds": 184.7,
  "scenarios": [...],
  "overall": {
    "total_questions": 19,
    "total_passed": 15,
    "total_failed": 4
  }
}

Where it should go instead:

• PR comment: Summary showing 15/19 tests passed
• CI/CD artifacts: Store as workflow artifacts for historical tracking
• Commit message: High-level outcome ("eval harness passing 15/19 tests")

Reasoning:
This is a snapshot of test execution from Feb 16, 2026. It describes "what happened when I ran this test" rather than durable documentation. As code evolves, these scores become outdated.

---

File 3: run_3_scenario_eval.py

Why flagged:

• Contains hardcoded environment-specific paths that won't work on other machines
• All configuration is hardcoded rather than parameterized
• Appears to be a one-off evaluation script used to generate eval_results.json
• No command-line arguments, environment variables, or configuration file support

Problematic content:

# Lines 29-31
MEMORY_LIB_PATH = "/home/azureuser/src/amplihack-memory-lib-real/src"
PROJECT_SRC = "/home/azureuser/src/amplihack5/src"
RESULTS_PATH = "/home/azureuser/src/amplihack5/eval_results.json"

Where it should go instead:

• If one-off: Delete after capturing results in PR comments
• If reusable: Refactor to accept configuration via:
  • Command-line arguments using argparse
  • Environment variables
  • Auto-detect paths relative to repo root
  • Configuration file

Reasoning:
The hardcoded /home/azureuser/ paths indicate this was written for a specific machine. Durable project scripts should be portable and work on any developer's machine or in CI/CD. Without parameterization, this appears to be a temporary evaluation script.

---

File 4: verify_progressive_tests.py

Why flagged:

• One-off verification script to confirm integration works
• Contains temporary/ad-hoc testing code that duplicates proper test infrastructure
• Minimal documentation, no parameterization
• Creates temp files for testing that could go in proper test suite

Problematic content:

def test_basic_functionality():
    """Test basic LearningAgent functionality without requiring API keys."""
    print("Testing LearningAgent basic functionality...")
    
    # Test 1: Backward compatibility
    from amplihack.agents.goal_seeking import WikipediaLearningAgent
    print(f"✓ Backward compatibility: LearningAgent is WikipediaLearningAgent = {LearningAgent is WikipediaLearningAgent}")

Where it should go instead:

• Proper test suite: Add these checks to tests/ directory with pytest
• CI verification: Run as part of automated testing
• Delete: If this was just for initial integration verification

Reasoning:
This is a temporary verification script to confirm the progressive test suite integration worked. Now that proper tests exist in tests/eval/test_progressive_suite.py, this ad-hoc verification script is redundant.

---

File 5: src/amplihack/eval/IMPLEMENTATION_SUMMARY.md

Why flagged:

• Point-in-time document describing "What Was Created" during development
• Contains language indicating a specific implementation session
• Documents file line counts from the development moment (524 lines, 412 lines, etc.)
• Says "this file" referring to itself as development meta-documentation
• Lists "Files Created" and "Modified Files" like a development log

Problematic content:

# Progressive Test Suite Implementation Summary

## What Was Created

A comprehensive 6-level progressive test suite...

## Files Created

### Core Implementation
1. **`test_levels.py`** (524 lines)
   - Data structures for 6 test levels
   ...

6. **`IMPLEMENTATION_SUMMARY.md`** (this file)
   - Overview of what was built
   - Quick start guide
   - Next steps

Where it should go instead:

• PR description: Summary of what was implemented
• Commit message: Implementation details
• Integrate into permanent docs: Valuable information should go into PROGRESSIVE_TEST_SUITE.md or QUICK_START.md

Reasoning:
The phrase "What Was Created" and file line counts indicate a point-in-time development snapshot. This is development diary content, not durable documentation.

---

File 6: src/amplihack/eval/QUICK_START.md

Why flagged:

• Contains hardcoded environment-specific paths in examples
• Uses "Current Status" language that will become stale
• Has temporal references ("Target: ... after agent improvements")

Problematic content:

## Run Full Suite

```bash
cd /home/azureuser/src/amplihack5
python examples/run_progressive_eval.py
```

## 30-Second Overview

**Current Status**: L1 passing at 100%, L2-L6 expected ~30-40% average.
**Target**: L2-L6 at ~75% average after agent improvements.

Where it should go instead:

• Fix paths: Replace /home/azureuser/src/amplihack5 with generic paths (e.g., cd /path/to/amplihack or use repo-relative paths)
• Remove temporal status: Delete "Current Status" section - this describes state during development
• Keep durable content: The command examples and level descriptions are fine once paths are fixed

Reasoning:
The hardcoded path and "Current Status" section indicate this is a snapshot from a specific development session. Documentation should be timeless and portable.

---

ℹ️ To Override

If these files are intentional and should remain in the repository, add a PR comment containing:

repo-guardian:override (reason)

Where (reason) is a required non-empty justification explaining why these point-in-time documents/temporary scripts belong in the repository (for auditability purposes).

---

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[github-actions]

🤖 Auto-fixed version bump

The version in pyproject.toml has been automatically bumped to the next patch version.

If you need a minor or major version bump instead, please update pyproject.toml manually and push the change.

[github-actions]

Repo Guardian - Action Required

❌ Violations Found: Point-in-Time Documents and Temporary Scripts

---

File 1: TASK_COMPLETION_SUMMARY.md

Why flagged:

• This is a development diary documenting "what was done" during PR development
• Contains point-in-time status updates with checkmarks: "Task 1: ... ✅", "Task 2: ... ✅"
• Uses language like "Branch: feat/issue-2394-eval-harness-3scenario", "PR: feat: Learning agent system with HierarchicalMemory, Graph RAG, and eval harness #2395 (Open)"
• Documents verification steps from a specific development session
• This is the exact type of "status update" document mentioned in the rejection criteria

Problematic content:

# Task Completion Summary

## Branch: feat/issue-2394-eval-harness-3scenario
## PR: #2395 (Open)

## Task 1: Rename WikipediaLearningAgent → LearningAgent ✅

### Changes Made:
1. **File Rename**:
   - `src/amplihack/agents/goal_seeking/wikipedia_learning_agent.py` → `learning_agent.py`
...

### Verification:
- ✅ Import test: `from amplihack.agents.goal_seeking import LearningAgent, WikipediaLearningAgent`
- ✅ Alias test: `LearningAgent is WikipediaLearningAgent == True`

Where it should go instead:

• PR description: This content perfectly describes what was done in the PR
• Commit messages: Each task could be a separate commit with these details
• PR comments: Status updates during development

Reasoning:
This is literally titled "Task Completion Summary" and documents what was done during PR development. It's a status report from a specific development session, not durable reference documentation. Once the PR is merged, this document becomes historical context that belongs in the PR description, not the codebase.

---

File 2: eval_results.json

Why flagged:

• Contains test results with a specific timestamp: "timestamp": "2026-02-16T18:30:03"
• Documents test execution from a specific moment with elapsed time (184.7 seconds)
• Contains specific pass/fail counts that will become stale as code evolves (15/19 passed)
• Includes environment-specific configuration and test answers from one run

Problematic content:

{
  "timestamp": "2026-02-16T18:30:03",
  "model": "anthropic/claude-sonnet-4-5-20250929",
  "elapsed_seconds": 184.7,
  "scenarios": [...],
  "overall": {
    "total_questions": 19,
    "total_passed": 15,
    "total_failed": 4
  }
}

Where it should go instead:

• PR comment: Summary showing 15/19 tests passed
• CI/CD artifacts: Store as workflow artifacts for historical tracking
• Commit message: High-level outcome ("eval harness passing 15/19 tests")

Reasoning:
This is a snapshot of test execution from Feb 16, 2026. It describes "what happened when I ran this test" rather than durable documentation. As code evolves, these scores become outdated.

---

File 3: run_3_scenario_eval.py

Why flagged:

• Contains hardcoded environment-specific paths that won't work on other machines
• All configuration is hardcoded rather than parameterized
• Appears to be a one-off evaluation script used to generate eval_results.json
• No command-line arguments, environment variables, or configuration file support

Problematic content:

# Lines 29-31
MEMORY_LIB_PATH = "/home/azureuser/src/amplihack-memory-lib-real/src"
PROJECT_SRC = "/home/azureuser/src/amplihack5/src"
RESULTS_PATH = "/home/azureuser/src/amplihack5/eval_results.json"

Where it should go instead:

• If one-off: Delete after capturing results in PR comments
• If reusable: Refactor to accept configuration via:
  • Command-line arguments using argparse
  • Environment variables
  • Auto-detect paths relative to repo root
  • Configuration file

Reasoning:
The hardcoded /home/azureuser/ paths indicate this was written for a specific machine. Durable project scripts should be portable and work on any developer's machine or in CI/CD.

---

File 4: verify_progressive_tests.py

Why flagged:

• One-off verification script to confirm integration works
• Contains temporary/ad-hoc testing code that duplicates proper test infrastructure
• Minimal documentation, no parameterization
• Creates temp files for testing that could go in proper test suite

Problematic content:

def test_basic_functionality():
    """Test basic LearningAgent functionality without requiring API keys."""
    print("Testing LearningAgent basic functionality...")
    
    # Test 1: Backward compatibility
    from amplihack.agents.goal_seeking import WikipediaLearningAgent
    print(f"✓ Backward compatibility: LearningAgent is WikipediaLearningAgent = {LearningAgent is WikipediaLearningAgent}")

Where it should go instead:

• Proper test suite: Add these checks to tests/ directory with pytest
• CI verification: Run as part of automated testing
• Delete: If this was just for initial integration verification

Reasoning:
This is a temporary verification script to confirm the progressive test suite integration worked. Now that proper tests exist in tests/eval/test_progressive_suite.py, this ad-hoc verification script is redundant.

---

File 5: src/amplihack/eval/IMPLEMENTATION_SUMMARY.md

Why flagged:

• Point-in-time document describing "What Was Created" during development
• Contains language indicating a specific implementation session
• Documents file line counts from the development moment (524 lines, 412 lines, etc.)
• Says "this file" referring to itself as development meta-documentation
• Lists "Files Created" and "Modified Files" like a development log

Problematic content:

# Progressive Test Suite Implementation Summary

## What Was Created

A comprehensive 6-level progressive test suite...

## Files Created

### Core Implementation
1. **`test_levels.py`** (524 lines)
   - Data structures for 6 test levels
   ...

6. **`IMPLEMENTATION_SUMMARY.md`** (this file)
   - Overview of what was built
   - Quick start guide
   - Next steps

Where it should go instead:

• PR description: Summary of what was implemented
• Commit message: Implementation details
• Integrate into permanent docs: Valuable information should go into PROGRESSIVE_TEST_SUITE.md or QUICK_START.md

Reasoning:
The phrase "What Was Created" and file line counts indicate a point-in-time development snapshot. This is development diary content, not durable documentation.

---

File 6: src/amplihack/eval/QUICK_START.md

Why flagged:

• Contains hardcoded environment-specific paths in examples
• Uses "Current Status" language that will become stale
• Has temporal references ("Target: ... after agent improvements")

Problematic content:

## Run Full Suite

```bash
cd /home/azureuser/src/amplihack5
python examples/run_progressive_eval.py
```

## 30-Second Overview

**Current Status**: L1 passing at 100%, L2-L6 expected ~30-40% average.
**Target**: L2-L6 at ~75% average after agent improvements.

Where it should go instead:

• Fix paths: Replace /home/azureuser/src/amplihack5 with generic paths (e.g., cd /path/to/amplihack or use repo-relative paths)
• Remove temporal status: Delete "Current Status" section - this describes state during development
• Keep durable content: The command examples and level descriptions are fine once paths are fixed

Reasoning:
The hardcoded path and "Current Status" section indicate this is a snapshot from a specific development session. Documentation should be timeless and portable.

---

File 7: Specs/LEARNING_THEORY_NOTES.md

Why flagged:

• Point-in-time research notes with date stamp: "## Date: 2026-02-19"
• Contains implementation status that will become stale: "Status: Not yet implemented"
• Development notes rather than durable specification

Problematic content:

# Learning Theory Implementation Notes

## Date: 2026-02-19

## Source: Research agents analyzing 10 pedagogy theories + 8 child development theories

...

### 1. Active Retrieval Protocol (Testing Effect + Spaced Repetition)
- **Status**: Not yet implemented

### 2. Self-Explanation Prompting (Chi 1994 + Elaborative Interrogation)
- **Status**: Not yet implemented

Where it should go instead:

• Issue/PR: Track as GitHub issue or discussion for future work
• If needed long-term: Convert to a durable spec without dates and "not yet implemented" statuses

Reasoning:
Date stamp and "Status: Not yet implemented" indicate this is a snapshot of research from a specific date, not a timeless specification.

---

File 8: Specs/CONTINUOUS_IMPROVEMENT_PLAN.md

Why flagged:

• Point-in-time plan with date stamp: "## Date: 2026-02-19"
• Contains "Phase 1: Foundation (Steps 1-2) ✅ COMPLETE" - temporal status
• Uses "Branch: feat/issue-2394-eval-harness-3scenario" - specific to this PR

Problematic content:

# Continuous Improvement Loop: Goal-Seeking Agent Learning & Teaching

## Date: 2026-02-19

## Branch: feat/issue-2394-eval-harness-3scenario

...

### Phase 1: Foundation (Steps 1-2) ✅ COMPLETE

Where it should go instead:

• PR description or issue: Track improvement plan in GitHub
• If strategic: Convert to timeless architecture document without dates/statuses

Reasoning:
Date stamp, branch reference, and completion checkmarks indicate this is a development plan snapshot, not durable documentation.

---

File 9: Specs/TEACHER_STUDENT_EVAL_DESIGN.md

Borderline - likely acceptable:
While this contains "For: Next session colleague designing the two-agent eval" (temporal language), it appears to be a design specification/brief rather than a development diary. The content describes a durable evaluation design approach. Recommend keeping but removing the temporal framing ("For: Next session colleague").

---

Files 10-35: Test result JSON files

Why flagged:
All files in debug_eval/ and eval_progressive_example/ directories contain point-in-time test execution results with timestamps, scores, and run-specific data:

• debug_eval/summary.json
• eval_progressive_example/summary.json
• eval_progressive_example/L*/scores.json
• eval_progressive_example/run_*/L*/scores.json
• eval_progressive_example/run_*/summary.json

Reasoning:
These are snapshots of test executions from specific moments. They should be CI/CD artifacts, not committed files.

---

ℹ️ To Override

If these files are intentional and should remain in the repository, add a PR comment containing:

repo-guardian:override (reason)

Where (reason) is a required non-empty justification explaining why these point-in-time documents/temporary scripts belong in the repository (for auditability purposes).

Note: The override must come from a non-bot user with OWNER, MEMBER, or COLLABORATOR association.

---

🤖 AI generated by Repo Guardian

AI generated by Repo Guardian