git:20261022.4d8df2f to git:20261028.f695e6a

7 added, 3 removed. Audit A to A.

---

name: mathodology-whole-project

description: Use when starting a modeling task or installing, backing up or maintaining the skills pack.

---

# Mathodology Modeling Companion

Mathodology helps turn a problem into a justified model, reproducible results and

- clear scientific communication. It is a skills pack, not an application or an

- execution engine. Use [modeling prompts](../mathodology-agent-pipeline/SKILL.md)

+ clear scientific communication. It is a skills pack with one executable part:

+ the [workbench](../mathodology-workbench/SKILL.md) records runs and checks that

+ results, figures and the paper agree, through a script and Claude Code hooks.

+ Use [modeling prompts](../mathodology-agent-pipeline/SKILL.md)

as a flexible guide. For figures use

[figure presets](../mathodology-figure-presets/SKILL.md), including its image2

availability question. For evidence use

[evidence search](../mathodology-evidence-search/SKILL.md).

## Start or resume a modeling task

Work in the user's chosen directory or an ignored `work/` directory in this

checkout. Produce only artifacts needed for the requested deliverable and keep

- numerical results traceable. Use specialists where they help and the host allows

+ numerical results traceable: `mtd.py init` sets up a workspace whose hooks keep

+ results, figures and the paper consistent, and `mtd.py status` shows where an

+ existing one stands. Use specialists where they help and the host allows

it.

## Maintain and distribute

The maintained source is `.claude/skills/`. Claude Code roles and workflow prompts

are adjacent. Codex may use an installed `.agents/skills/` mirror. Back up this

project's mirror before updating its Mathodology entries. Do not modify unrelated

skills, project instructions, custom MCP settings or global configuration.

For installation in other projects, use the standard skills CLI; for a clean

repository checkout, use `git pull --ff-only`. Resolve local edits before updating;

do not reset them. Installation details are in the repository's docs/INSTALL.md.

A skills-only global install does not install project roles or MCP settings.

The optional [backup utility](scripts/create-source-backup.sh) saves skills,

references and repository docs, including local uncommitted source changes:

```bash

bash .claude/skills/mathodology-whole-project/scripts/create-source-backup.sh

```

It excludes the ignored Codex mirror, contest outputs and Git history. Back those

up separately when needed. Extract a backup into an empty directory and verify

its checksum before replacing an installation. No application build is required.