Agent Skills: Simulation Validator

Simulation Validator

Goal

Provide a three-stage validation protocol: pre-flight checks, runtime monitoring, and post-flight validation for materials simulations.

Requirements

• Python 3.8+
• No external dependencies (uses Python standard library only)
• Works on Linux, macOS, and Windows

Inputs to Gather

Before running validation scripts, collect from the user:

| Input | Description | Example | |-------|-------------|---------| | Config file | Simulation configuration (JSON/YAML) | simulation.json | | Log file | Runtime output log | simulation.log | | Metrics file | Post-run metrics (JSON) | results.json | | Required params | Parameters that must exist | dt,dx,kappa | | Valid ranges | Parameter bounds | dt:1e-6:1e-2 |

Decision Guidance

When to Run Each Stage

Is simulation about to start?
├── YES → Run Stage 1: preflight_checker.py
│         └── BLOCK status? → Fix issues, do NOT run simulation
│         └── WARN status? → Review warnings, document if accepted
│         └── PASS status? → Proceed to run simulation
│
Is simulation running?
├── YES → Run Stage 2: runtime_monitor.py (periodically)
│         └── Alerts? → Consider stopping, check parameters
│
Has simulation finished?
├── YES → Run Stage 3: result_validator.py
│         └── Failed checks? → Do NOT use results
│                            → Run failure_diagnoser.py
│         └── All passed? → Results are valid

Choosing Validation Thresholds

| Metric | Conservative | Standard | Relaxed | |--------|--------------|----------|---------| | Mass tolerance | 1e-6 | 1e-3 | 1e-2 | | Residual growth | 2x | 10x | 100x | | dt reduction | 10x | 100x | 1000x |

Script Outputs (JSON Fields)

| Script | Output Fields | |--------|---------------| | scripts/preflight_checker.py | report.status, report.blockers, report.warnings | | scripts/runtime_monitor.py | alerts, residual_stats, dt_stats | | scripts/result_validator.py | checks, confidence_score, failed_checks | | scripts/failure_diagnoser.py | probable_causes, recommended_fixes |

Three-Stage Validation Protocol

Stage 1: Pre-flight (Before Simulation)

1. Run scripts/preflight_checker.py --config simulation.json
2. BLOCK status: Stop immediately, fix all blocker issues
3. WARN status: Review warnings, document accepted risks
4. PASS status: Proceed to simulation

python3 scripts/preflight_checker.py \
    --config simulation.json \
    --required dt,dx,kappa \
    --ranges "dt:1e-6:1e-2,dx:1e-4:1e-1" \
    --min-free-gb 1.0 \
    --json

Stage 2: Runtime (During Simulation)

1. Run scripts/runtime_monitor.py --log simulation.log periodically
2. Configure alert thresholds based on problem type
3. Stop simulation if critical alerts appear

python3 scripts/runtime_monitor.py \
    --log simulation.log \
    --residual-growth 10.0 \
    --dt-drop 100.0 \
    --json

Stage 3: Post-flight (After Simulation)

1. Run scripts/result_validator.py --metrics results.json
2. All checks PASS: Results are valid for analysis
3. Any check FAIL: Do NOT use results, diagnose failure

python3 scripts/result_validator.py \
    --metrics results.json \
    --bound-min 0.0 \
    --bound-max 1.0 \
    --mass-tol 1e-3 \
    --json

Failure Diagnosis

When validation fails:

python3 scripts/failure_diagnoser.py --log simulation.log --json

Conversational Workflow Example

User: My phase field simulation crashed after 1000 steps. Can you help me figure out why?

Agent workflow:

1. First, check the log for obvious errors:

   python3 scripts/failure_diagnoser.py --log simulation.log --json
   

2. If diagnosis suggests numerical blow-up, check runtime stats:

   python3 scripts/runtime_monitor.py --log simulation.log --json
   

3. Recommend fixes based on findings:
   • If residual grew rapidly → reduce time step
   • If dt collapsed → check stability conditions
   • If NaN detected → check initial conditions

Error Handling

| Error | Cause | Resolution | |-------|-------|------------| | Config not found | File path invalid | Verify config path exists | | Non-numeric value | Parameter is not a number | Fix config file format | | out of range | Parameter outside bounds | Adjust parameter or bounds | | Output directory not writable | Permission issue | Check directory permissions | | Insufficient disk space | Disk nearly full | Free up space or reduce output |

Interpretation Guidance

Status Meanings

| Status | Meaning | Action | |--------|---------|--------| | PASS | All checks passed | Proceed with confidence | | WARN | Non-critical issues found | Review and document | | BLOCK | Critical issues found | Must fix before proceeding |

Confidence Score Interpretation

| Score | Meaning | |-------|---------| | 1.0 | All validation checks passed | | 0.75+ | Most checks passed, minor issues | | 0.5-0.75 | Significant issues, review carefully | | < 0.5 | Major problems, do not trust results |

Common Failure Patterns

| Pattern in Log | Likely Cause | Recommended Fix | |----------------|--------------|-----------------| | NaN, Inf, overflow | Numerical instability | Reduce dt, increase damping | | max iterations, did not converge | Solver failure | Tune preconditioner, tolerances | | out of memory | Memory exhaustion | Reduce mesh, enable out-of-core | | dt reduced | Adaptive stepping triggered | May be okay if controlled |

Limitations

• Not a real-time monitor: Scripts analyze logs after-the-fact
• Regex-based: Log parsing depends on pattern matching; may miss unusual formats
• No automatic fixes: Scripts diagnose but don't modify simulations

References

• references/validation_protocol.md - Detailed checklist and criteria
• references/log_patterns.md - Common failure signatures and regex patterns

Version History

• v1.1.0 (2024-12-24): Enhanced documentation, decision guidance, Windows compatibility
• v1.0.0: Initial release with 4 validation scripts