ctmv3

name	ctmv3
description	Workspace activation system that bootstraps a repo into a living, agent-operable state. Creates .sovereign/, AGENTS.md, ARCHITECTURE_MAP.md, TOPOLOGY.md, FAILURE_GRAMMAR.md, PROVENANCE.md, .claude/, .codex/, .github/ artifacts. Use when Daeron says "activate this repo", "cold start this codebase", "bring this codebase alive", "set up agent hooks", "build architecture map", or "warm start session". This is NOT a skill maker -- it is a codebase onboarding/activation engine. A skill may be one byproduct, but the repo itself is the real output.
version	1.0.0

CTMv3 — Workspace Activation System

Paradigm: Workspace activation, not skill creation Version: v3.0 — Session State Machine + Executable Ecosystem Operator: Daeron Philosophy: A codebase with a CTM activation pass is executable by any agent on cold entry — not explained to the agent, but alive in the agent's hands. The repo is the output.

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IDENTITY BLOCK

CTMv3 is not a skill maker. It is a codebase activation and workspace onboarding system. Its job is to enter a repo and make that repo living for agents.

What CTMv3 produces after a full pass:

• TOPOLOGY.md — cognitive map of the domain
• FAILURE_GRAMMAR.md — failure taxonomy and pre-failure signatures
• ARCHITECTURE_MAP.md — traversal map, question-oriented navigation
• PROVENANCE.md — decision log, rejected paths, snapshot lineage
• AGENTS.md — agent operational posture
• .sovereign/ — session continuity anchor (session_state.json, golden_paths.json)
• .claude/ — Claude Code permissions and context
• .codex/ — Codex skill installs and session state
• .github/ — CI enforcement hooks and per-path agent context

The repo itself is the real output. Skill creation may happen as part of the pass, but it is one byproduct of a much larger activation, not the primary identity of the system.

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SEMANTIC ROUTER — Load This Document, Not That One

Classify task type before loading any sub-document. Load only what the task requires.

TASK TYPE -> LOAD ORDER
----------------------------------------------------------------------

[COLD_START_REPO] -- entering a codebase with no prior CTM artifacts
  -> BOOT_PROTOCOL.md (run discovery) -> TOPOLOGY.md -> DOT_TOPOLOGY.md
  -> interfaces/{lang}.md -> Phase 0 full archaeology -> build all artifacts

[WARM_START_REPO] -- resuming a session in a CTM-encoded codebase
  -> BOOT_PROTOCOL.md (run warm check) -> PROVENANCE.md (check lineage + session log)
  -> diff current state -> continue from last logged action

[BUILD_ARCHITECTURE_MAP] -- producing the traversal-map artifact for a codebase
  -> ARCHITECTURE_MAP_TEMPLATE.md -> TOPOLOGY.md -> build ARCHITECTURE_MAP.md

[NEW_SKILL from scratch]
  -> TOPOLOGY.md (anatomy) -> CONSTITUTION.md (philosophy) -> interfaces/{lang}.md -> build

[ENCODE existing codebase]
  -> BOOT_PROTOCOL.md -> TOPOLOGY.md -> interfaces/{lang}.md
  -> examples/case_codebase_entry.md -> build

[INTEGRATE_AGENT_ECOSYSTEM] -- setting up .github/, .claude/, .codex/, .sovereign/
  -> DOT_TOPOLOGY.md -> BOOT_PROTOCOL.md -> build ecosystem artifacts

[OSINT / RE / adversarial domain]
  -> TOPOLOGY.md -> FAILURE_GRAMMAR.md -> examples/case_osint.md -> build

[UPGRADE existing skill]
  -> Read existing SKILL.md -> TOPOLOGY.md -> diff against CTMv3 standard -> upgrade

[AGENTS.md / CLAUDE.md / constitution build]
  -> CONSTITUTION.md -> TOPOLOGY.md -> AGENTS_ADDENDUM.md -> wrap existing agent posture

[FAILURE / something smells wrong]
  -> FAILURE_GRAMMAR.md immediately, before any other action

[SESSION START in encoded repo]
  -> BOOT_PROTOCOL.md -> warm check -> if stale: PROVENANCE.md -> TOPOLOGY.md

Hard rule: Never load all sub-documents upfront. Load conditionally. BOOT_PROTOCOL.md is mandatory for any repo entry task. It determines the branch. FAILURE_GRAMMAR.md loads when something smells wrong -- not as a precaution but as a response.

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PHASE PROTOCOLS

PRE-PHASE: Boot State Check (ALWAYS before any other phase for repo tasks)

Load BOOT_PROTOCOL.md and run the discovery sequence before Phase 0.

The boot check answers: is this a cold entry or a warm entry?

• Cold entry -> full Phase 0-5 archaeology + artifact construction
• Warm entry -> PROVENANCE.md diff + continuation from last session

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PHASE 0: Domain Archaeology (Always First for Cold Entry)

Before writing a single line of skill, excavate the domain:

1. Load-bearing concepts -- What are the 3-7 concepts everything else depends on?
2. Interface boundaries -- Where does this domain end?
3. Complexity topology -- Where does hard complexity actually concentrate?
4. Baked-in decisions -- What architectural choices were made upstream?
5. Snapshot lineage -- What snapshot is this domain at?
6. Hardware reality check -- Daeron's primary: Ryzen 5 2400G / 12GB RAM, no GPU.
7. Config file spine -- What does the .xyz directory landscape look like?

Output of Phase 0: A domain topology sketch -- working map of nodes, edges, and weight concentration. Not a document yet.

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PHASE 1: Topology Construction

Build TOPOLOGY.md. The cognitive map of the domain.

Sections: Load-Bearing Concepts, Interface Map, Complexity Distribution, Dependency Graph, Baked-In Decisions, Anti-Concepts, Config File Spine.

Mermaid is mandatory for any topology with more than 4 nodes.

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PHASE 2: Failure Grammar Construction

Build FAILURE_GRAMMAR.md. Not an error list. Taxonomy of what wrong looks like before you can prove it is wrong.

For adversarial domains: adversarial inputs are mandatory. For all domains: pre-failure signatures and false success patterns are mandatory.

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PHASE 3: Entry Vector Analysis

Encode different entry vectors explicitly in the new skill's semantic router.

Entry Type	Entry Point	First Doc
Cold session	Boot check	BOOT_PROTOCOL.md
Warm session	Provenance diff	PROVENANCE.md -> TOPOLOGY.md
Debugging	Failure grammar	FAILURE_GRAMMAR.md
New module integration	Interface boundaries	TOPOLOGY.md -> interfaces/{lang}.md
RE / reversing	Adversarial signatures	FAILURE_GRAMMAR.md -> TOPOLOGY.md
Research / hypothesis	Load-bearing concepts	TOPOLOGY.md
Snapshot validation	Provenance chain	PROVENANCE.md -> TOPOLOGY.md

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PHASE 4: Provenance Chain

Build or update PROVENANCE.md.

Sections: Snapshot Lineage, Architectural Decisions (Chronological), Rejected Alternatives (Graveyard), Open Questions, Integration History, Session Log.

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PHASE 5: Ecosystem Artifact Construction

Build the executable agent ecosystem. Depending on repo type and what is absent, produce:

[project-root]/
+-- ARCHITECTURE_MAP.md   <- Traversal map
+-- AGENTS.md             <- Operational posture for Codex / Claude Code
+-- CLAUDE.md             <- Claude-specific context (if Claude Code is primary agent)
+-- .github/
|   +-- instructions/     <- Per-path agent context files
|   +-- workflows/        <- CI enforcement hooks
|   +-- copilot-instructions.md
+-- .claude/
|   +-- settings.json     <- Claude Code settings (permissions, env)
+-- .codex/               <- Codex skill installs
|   +-- skills/
+-- .sovereign/           <- Sovereign session state
    +-- session_state.json
    +-- golden_paths.json
    +-- PROVENANCE.md

Assembly rules:

• SKILL.md is the ONLY entry point. Everything else is loaded conditionally.
• ARCHITECTURE_MAP.md replaces flat README for agent navigation.
• .sovereign/ is the session continuity anchor -- create it if absent.
• No circular references between sub-documents.
• CONSTITUTION.md is shared across skills -- link it, never duplicate it.

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HOW TO INVOKE COMMANDS

This skill ships with shell wrappers in scripts/. Each wrapper invokes the CTMv3 Python engine via python3 -m ctmv3 <command>.

Usage pattern:

bash scripts/ctmv3-<command>.sh [PROJECT_ROOT] [additional args...]

If PROJECT_ROOT is omitted, $PWD is used.

Available wrappers:

Script	Command	Purpose
scripts/ctmv3-boot.sh	boot	Discovery sequence -- cold vs warm branch determination
scripts/ctmv3-activate.sh	activate	Full Phase 0-5 cold start activation pass
scripts/ctmv3-warm.sh	warm	Warm start: provenance diff + continuation
scripts/ctmv3-architecture-map.sh	architecture-map	Build or update ARCHITECTURE_MAP.md
scripts/ctmv3-sovereign-init.sh	sovereign-init	Initialize .sovereign/ directory and artifacts
scripts/ctmv3-dot-init.sh	dot-init	Initialize .github/, .claude/, .codex/ directories
scripts/ctmv3-session-close.sh	session-close	Close session cleanly, update PROVENANCE.md
scripts/ctmv3-status.sh	status	Report current boot state and signal inventory

Example invocations:

# Boot check on current directory
bash scripts/ctmv3-boot.sh

# Full activation of a specific repo
bash scripts/ctmv3-activate.sh /path/to/repo

# Check status with JSON output
bash scripts/ctmv3-status.sh /path/to/repo --json

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OUTPUT CONTRACT

A completed CTMv3 activation pass produces eight outputs:

1. Agent can answer without asking: What are the 3 things I cannot get wrong?
2. Agent can recognize failure before it is provable: What does wrong smell like?
3. Agent knows what was already rejected: What will not be re-discovered?
4. Agent knows where complexity concentrates: Where to slow down?
5. Agent knows its entry vector: Based on task type, where to enter?
6. Agent knows the boot state: Cold entry or warm entry? Determined in < 60 seconds.
7. Agent has a traversal map: ARCHITECTURE_MAP.md answers "where is X" without a guide.
8. Codebase enforces itself: .github/, .sovereign/, AGENTS.md create structural enforcement.

If any of these eight outputs are missing, the activation pass is incomplete.

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ANTI-PATTERNS

• Step-by-step workflows (AGENTS.md quick reference handles that)
• UI/UX documentation
• Tutorial content (full technical depth assumed)
• Generic best practices (encode Daeron's actual decisions)
• Flat single-file skills for complex domains
• Skills that assume happy path (failure grammar mandatory)
• Ecosystem setup that requires operator intervention to activate (hooks must fire automatically)
• ARCHITECTURE_MAP that summarizes instead of navigates (summaries are for humans, maps are for agents)

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REFERENCE FILES

File	Load When
REFERENCES.md	Finding the full CTMv3 cognitive doc set
BOOT_PROTOCOL.md	Any repo entry task -- always
DOT_TOPOLOGY.md	Building ecosystem artifacts, .xyz directory work
ARCHITECTURE_MAP_TEMPLATE.md	Building traversal maps
TOPOLOGY.md	Building or entering any domain
FAILURE_GRAMMAR.md	Something smells wrong, or domain is adversarial
PROVENANCE.md	Session start, lineage checks, snapshot work
CONSTITUTION.md	Dev philosophy alignment, architectural disputes
AGENTS_ADDENDUM.md	Building AGENTS.md integration, Codex onboarding