Add Repository Intelligence Bootstrap: repo-bootstrap.sh, all 13 agents updated, docs, tests

- scripts/repo-bootstrap.sh: generic idempotent bootstrap tool (status/bootstrap/refresh)
  - creates .opencode/ with repo-context, architecture, build-and-test, conventions, deployment skills
  - relevance-based skill generation (only creates what the repo actually has)
  - staleness detection via .bootstrap-meta (key=value, SHA-256 fingerprints)
  - marker-based manual protection (never overwrites unmarked files)
  - accepts --root flag for explicit repo targeting

- scripts/test-repo-bootstrap.sh: 11 tests covering all 10 acceptance criteria
  - creation, idempotency, manual preservation, relevance detection
  - orchestrator/agent structural checks, staleness, genericness
  - install.sh workflow compatibility, malformed handling

- agents/orchestrator.md: first-class Repository Intelligence Bootstrap stage
  - 10-step workflow, ownership rules table, staleness signals
  - consumption rules, backward compatibility, fallback procedure

- All 12 subagent files: role-adapted Repository Intelligence section
  - architect: owns architecture skill
  - builder/tester: own build-and-test skill (shared)
  - explorer: owns repo-context skill
  - maintainer: owns conventions skill + audits .opencode/
  - reviewer: validates consistency (consumer/reporter)
  - designer/detective/philosopher/toolsmith/workflow-architect/writer: consume-only

- docs/REPOSITORY_INTELLIGENCE.md: full architecture documentation
- README.md: updated layout, bootstrap usage, requirements
- 13/13 agents installed, permission-engine verifier PASS

README.md

@@ -19,17 +19,32 @@ re-running it is safe, and it backs up any pre-existing files it would
 overwrite into a timestamped folder under `<target>/.backup/`, keeping only
 the 5 most recent backup folders.
 
+### Repository Intelligence Bootstrap
+
+The team includes a **Repository Intelligence Bootstrap** system: when the
+Orchestrator starts work on an unfamiliar repository, it automatically analyzes
+the repository and generates a local `.opencode/` knowledge layer
+(context, architecture, build/test, conventions, deployment). Every agent then
+reads this pre-analyzed context instead of re-discovering repository fundamentals.
+
+The bootstrap is idempotent, language-agnostic, and preserves manually enriched
+content. See [docs/REPOSITORY_INTELLIGENCE.md](docs/REPOSITORY_INTELLIGENCE.md)
+for the full architecture.
+
 ## Repository layout
 
 ```text
 dev_agent_team/
-├── README.md              # this file
+├── README.md                          # this file
 ├── .gitignore
-├── agents/                # the 13 agent definitions (*.md)
+├── agents/                            # the 13 agent definitions (*.md)
 ├── scripts/
-│   └── install.sh         # one-command installer
+│   ├── install.sh                     # one-command installer
+│   ├── repo-bootstrap.sh              # repository intelligence bootstrap tool
+│   └── test-repo-bootstrap.sh         # test suite for the bootstrap
 └── docs/
-    └── PROMPT_INSTALL.md  # paste-ready prompt for installing from inside opencode
+    ├── PROMPT_INSTALL.md              # paste-ready prompt for installing from inside opencode
+    └── REPOSITORY_INTELLIGENCE.md     # bootstrap architecture documentation
 ```
 
 ## Quickstart
@@ -46,6 +61,25 @@ To install somewhere other than the default location:
 OPENCODE_AGENTS_DIR=/path/to/opencode/agents ./scripts/install.sh
 ```
 
+## Repository bootstrap
+
+After installing the agents, the bootstrap tool is available at
+`scripts/repo-bootstrap.sh`. From inside any target repository:
+
+```bash
+# Check freshness (exit 0=fresh, 1=stale/missing)
+repo-bootstrap.sh status
+
+# Create/update .opencode/ knowledge layer
+repo-bootstrap.sh bootstrap
+
+# Force regenerate generated files
+repo-bootstrap.sh refresh
+```
+
+Run `bash scripts/test-repo-bootstrap.sh` to verify bootstrap behavior
+(11 tests covering all 10 acceptance criteria).
+
 ## Manual install alternative
 
 Prefer to do it yourself? A plain copy achieves the same result:
@@ -67,7 +101,7 @@ result: see [docs/PROMPT_INSTALL.md](docs/PROMPT_INSTALL.md).
 ## Requirements
 
 - [opencode](https://opencode.ai) installed (needed to actually use the agents)
-- `bash` and coreutils (`cp`, `mkdir`, `date`) — present on any Linux/macOS system
+- `bash` and coreutils (`cp`, `mkdir`, `date`, `sha256sum` or `cksum`)
 - SSH access to the gitea host for cloning (or an HTTPS remote, if mirrored)
 
 ## Verification