Research init

Bring one target workspace to a verified ARC setup state. Treat setup as infrastructure work, not research intent. Stop with a precise handoff to research-onboard, research-brainstorm, or research-package.

Read references/setup-contract.md before a protocol merge, external RESEARCH_ROOT, or skill-path repair.

Boundary

Own setup orchestration only:

• inspect the toolbox, target workspace, research root, protocol files, skill links, interface, and Server;
• install or repair repository-backed skill symlinks;
• attach AGENTS.md and CLAUDE.md through managed blocks without replacing project-owned text;
• initialize an empty managed root through lib.research_state;
• validate the current managed state;
• build the interface and start or reuse a healthy Dashboard Server by default;
• report the resolved roots, mutations, Server URL, health, and next skill.

Do not infer or commit Project, Direction, or Experiment intent. Do not create a Package, launch a Run, modify source/data/environments, write management events directly, adopt unsupported legacy roots, or commit Git changes.

Procedure

1. Inspect before mutation

Run the read-only classifier:

python3 skills/research-init/scripts/research_init.py \
  --workspace <workspace> \
  inspect \
  --agent codex

Use --agent claude or --agent both when requested. Resolve script paths through the installed research-init symlink in a target project.

Interpret the state exactly:

• ABSENT: safe greenfield setup candidate.
• CURRENT: reconcile protocols, skills, interface, and Server.
• INVALID: stop. Legacy data, an unknown version, or an unversioned managed root is unsupported; do not adopt or rewrite it by guessing.

2. Review protocol conflicts

If either protocol is UNMANAGED, show the target file and the proposed managed block. Obtain user confirmation before passing --merge-protocols. Never overwrite project-owned text. A symlink, directory, or malformed managed block is a hard conflict.

3. Set up a greenfield or current workspace

python3 skills/research-init/scripts/research_init.py \
  --workspace <workspace> \
  setup \
  --agent codex

The command installs all repository skills for the selected agent, attaches the protocols, initializes .research only when absent, builds the interface, and starts or reuses the Dashboard Server. Use --merge-protocols only after step 2. Use --no-serve only when the user explicitly requests a headless or CI setup.

4. Validate and report

python3 skills/research-init/scripts/research_init.py \
  --workspace <workspace> \
  check \
  --agent codex

Report all of the following:

• workspace, research_root, and managed VERSION;
• skill installation roots and any repaired links;
• protocol actions and confirmation that project-owned prefixes remain;
• interface root and Dashboard Server action, started or reused;
• Dashboard URL, host, port, health, and SSH forwarding command;
• the exact Dashboard stop command;
• READY_NO_PROJECT, READY_WITH_PROJECT, or REPAIR_REQUIRED;
• the single next action.

Use research-onboard when no active Project exists. With an active Project, use research-brainstorm for a vague Direction or research-package for a ready plan.

Bootstrap note

An agent must discover research-init before this skill can install its siblings. Keep one minimal bootstrap command in the toolbox README. After the skill is available, route all setup, attach, and setup-repair work through this skill.