Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
git clone --depth 1 https://github.com/idoforgod/Dissertation-Simulator-AgenticWorkflowWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/commands/idoforgod/dissertation-simulator-agenticworkflow/thesis-finalize)<a href="https://agentmods.dev/commands/idoforgod/dissertation-simulator-agenticworkflow/thesis-finalize"><img src="https://agentmods.dev/badge/commands/idoforgod/dissertation-simulator-agenticworkflow/thesis-finalize/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/commands/idoforgod/dissertation-simulator-agenticworkflow/thesis-finalize"><img src="https://agentmods.dev/badge/commands/idoforgod/dissertation-simulator-agenticworkflow/thesis-finalize.svg" alt="Reviewed on agentmods" width="80" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00020 | $0.00310 |
| Opus 5.5 | $0.00008 | $0.00124 |
| Sonnet 5.5 | $0.00004 | $0.00062 |
| Haiku 4.5 | $0.00002 | $0.00031 |
Grade A, and why
thesis-finalize scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 1mo ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
What it actually says
Finalize (HITL-8)
Human-in-the-loop checkpoint for thesis completion.
Protocol
Step 1: Final Quality Check
Run comprehensive quality assessment:
- Full SRCS evaluation on all claims
- Final plagiarism check
- Citation completeness (bidirectional)
- Formatting compliance verification
- GRA grounding rate calculation
Step 2: Present Final Report
Display to user:
- Overall quality metrics
- Publication readiness assessment
- Remaining issues (if any)
- Complete output file inventory
Step 3: User Decision
Ask user to:
- Complete — mark workflow as finished
- Revise — return to specific phase for corrections
- Proceed to Publication — activate Phase 4 agents
Step 4: Record HITL-8
python3 "$CLAUDE_PROJECT_DIR"/.claude/hooks/scripts/checklist_manager.py \
--project-dir "$CLAUDE_PROJECT_DIR/thesis-output/{project}" \
--record-hitl hitl-8 --status completed
Step 5: Save Final Checkpoint
python3 "$CLAUDE_PROJECT_DIR"/.claude/hooks/scripts/checklist_manager.py \
--save-checkpoint --checkpoint hitl-8-finalize \
--project-dir "$CLAUDE_PROJECT_DIR/thesis-output/{project}"
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 1mo ago First seen · 45 lines · 20 tokens per session scan A aa6eaac892cd
thesis-finalize is a command published in the GitHub repository idoforgod/Dissertation-Simulator-AgenticWorkflow (108 stars, last pushed 4mo ago), licensed MIT. It adds 20 tokens to every session and 310 once invoked, about $0.0001 per session on Opus 5.5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-03.
Other commands, from other repositories
verify-math
Verify a self-authored mathematical result end to end by routing claims across adversarial review, numerical falsification, symbolic or CAS checks, and Lean, then aggregating one report. Use when a theorem, proposition, conjecture, or paper-wide mathematical argument needs the appropriate combination of verification…
diff
Quantitative volume comparison between a CadQuery model and a reference STEP file.
simulation-calibrator
Test and refine simulation accuracy with validation loops, bias detection, and continuous improvement frameworks.
arg-diagram
ARG academic-paper diagram mode — standalone structural & conceptual diagram generation.
plot
Publication Polish. Runs after results-analysis (Phase 7). Audits all tables and figures produced in Phases 4–7, upgrades them to top-journal standards by calling the table and figure skills.
graphite-morphology-classify
Classify graphite in a cast-iron micrograph per ASTM A247 / ISO 945-1, quantify nodularity, and read the matrix — the single most diagnostic observation in a cast-iron case.