feat: Adds vm101 ingest wrapper and deploy tooling

deploy/vm101/README.md

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+# deploy/vm101
+
+System artifacts deployed to **vm101** (the GPU ingest node). The repo is the
+source of truth; the live copies live in `/usr/local/bin/`. Edit here, then
+`sudo ./install.sh` on vm101 to push changes.
+
+## Contents
+
+- `n8n-pi-wrap` — forced-command wrapper that fronts every n8n→vm101 SSH call.
+- `install.sh` — installs the wrapper(s) into `/usr/local/bin` (idempotent).
+
+## n8n-pi-wrap
+
+The only entry point for the `n8n-runner` identity onto vm101. n8n never gets a
+shell here: whatever it sends arrives as `SSH_ORIGINAL_COMMAND`, and a `case`
+whitelist decides what runs. Anything outside the whitelist is denied and logged.
+
+Allowed commands:
+
+| Command | What it does |
+|---|---|
+| `pi run` | one-shot prompt via stdin (proof-of-life / health) |
+| `pi ingest <genome> <raw_path>` | the real two-phase ingest (below) |
+| `ollama list` / `ollama ps` | model introspection |
+
+### The two-phase ingest
+
+`pi ingest` runs the clean-start + two phases, then stops:
+
+1. **Clean start** — `git fetch && switch <INGEST_BASE> && reset --hard origin/<base>`.
+   Destroys only vm101's *scratch* checkout (never a shared branch, never a
+   force-push) — this determinism is by design.
+2. **Semantic** — `skills/ingest/scripts/ingest-semantic.py <genome> <raw_path>`
+   drives `pi` to WRITE `wiki/*` pages + `.ingest-manifest.json`.
+   NOTE: this is the script, NOT `pi -p "/skill:ingest ..."` (that form makes the
+   model reply in chat and write nothing — the classic "manifest not found" trap).
+3. **Mechanical** — `skills/ingest/scripts/run-ingest.sh <genome>` validates the
+   manifest, then index/log/scoped-lint/commit on `feat/ai-ingest-<slug>` and opens
+   a PR onto `<INGEST_BASE>`. Emits one JSON line `{status,slug,pr_url,...}`.
+
+The PR then waits for the human gate. One raw per session, sequential.
+
+### Input hardening
+
+Both inputs come from `SSH_ORIGINAL_COMMAND`, so both are validated:
+
+- `genome` — kebab lowercase `^[a-z0-9-]+$`.
+- `raw_path` — must be under `raw/`, no `..` traversal, restricted charset
+  `[A-Za-z0-9._/-]`, and the file must exist. Rejected paths return a JSON error.
+
+Config (`INGEST_BASE`, `GENOMES_ROOT`, `INGEST_MODEL`, Forgejo token) is sourced
+from `~/.config/knowledge-genome.env` (0600, owner-only).
+
+## Install / update
+
+```bash
+# on vm101
+cd ~/knowledge-genome-orchestrator/deploy/vm101
+sudo ./install.sh
+```

deploy/vm101/install.sh

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+#!/bin/bash
+# deploy/vm101/install.sh — install vm101 wrappers from repo -> /usr/local/bin (idempotent).
+# Run ON vm101 with sudo:  sudo ./install.sh
+set -euo pipefail
+here="$(cd "$(dirname "$0")" && pwd)"
+install -m 0755 "${here}/n8n-pi-wrap" /usr/local/bin/n8n-pi-wrap
+echo "installed: /usr/local/bin/n8n-pi-wrap"
+bash -n /usr/local/bin/n8n-pi-wrap && echo "syntax: ok"

deploy/vm101/n8n-pi-wrap

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+#!/bin/bash
+set -eu
+cmd="${SSH_ORIGINAL_COMMAND:-}"
+case "$cmd" in
+ "pi run")
+   logger -t n8n-pi-wrap "ok: pi run (prompt via stdin)"
+   prompt=$(cat)
+   exec /usr/local/bin/pi --no-tools --mode json -p "$prompt" </dev/null
+   ;;
+ "pi ingest "*)
+   # Strict positional parse: EXACTLY `pi ingest <genome> <raw_path>` (two tokens).
+   rest="${cmd#pi ingest }"
+   genome="${rest%% *}"
+   raw_path="${rest#* }"
+   # reject: missing second token, or any extra token (a space left in raw_path)
+   if [ "$genome" = "$rest" ] || [ -z "$raw_path" ] || [ "$raw_path" != "${raw_path#* }" ]; then
+     echo '{"status":"error","reason":"usage: pi ingest <genome> <raw_path>"}'; exit 1
+   fi
+   # genome slug: kebab lowercase only
+   case "$genome" in ""|*[!a-z0-9-]*) echo '{"status":"error","reason":"invalid genome name"}'; exit 1;; esac
+   # raw_path whitelist: MUST live under raw/, no traversal, restricted charset.
+   #   - must start with "raw/"      - no ".." segment      - no absolute path / leading slash
+   #   - allowed chars: [A-Za-z0-9._/-]   (kebab slugs + subdirs like raw/articles/foo.md)
+   case "$raw_path" in
+     raw/*) : ;;
+     *) echo '{"status":"error","reason":"raw_path must be under raw/"}'; exit 1;;
+   esac
+   case "$raw_path" in
+     *..*|*//*) echo '{"status":"error","reason":"raw_path traversal"}'; exit 1;;
+   esac
+   case "$raw_path" in
+     *[!A-Za-z0-9._/-]*) echo '{"status":"error","reason":"raw_path illegal chars"}'; exit 1;;
+   esac
+
+   logger -t n8n-pi-wrap "ok: pi ingest ${genome} ${raw_path}"
+   set -a; . "${HOME}/.config/knowledge-genome.env"; set +a
+   cd "${GENOMES_ROOT}/${genome}" || { echo '{"status":"error","reason":"unknown genome"}'; exit 1; }
+
+   # The raw file must actually exist under the genome's raw/ dir.
+   [ -f "$raw_path" ] || { echo '{"status":"error","reason":"raw file not found"}'; exit 1; }
+
+   # Clean start on the configured base (develop), pinned to the remote. Destroys only
+   # vm101's scratch checkout (never a shared branch, never a force-push) — this is by design.
+   git fetch -q origin \
+     && git switch -q "${INGEST_BASE:-main}" 2>/dev/null \
+     && git reset -q --hard "origin/${INGEST_BASE:-main}"
+
+   # SEMANTIC step: dedicated script drives pi to WRITE wiki pages + manifest.
+   # (NOT `pi -p "/skill:ingest ..."`, which makes the model reply in chat and write nothing.)
+   log="$(mktemp -t pi-ingest.XXXXXX.log)"
+   "${HOME}/.pi/agent/skills/ingest/scripts/ingest-semantic.py" "${genome}" "${raw_path}" \
+       >"$log" 2>&1 \
+     || { echo "{\"status\":\"error\",\"stage\":\"semantic\",\"reason\":\"ingest-semantic failed\",\"log\":\"${log}\"}"; exit 1; }
+
+   # MECHANICAL step: validate manifest -> index/log/scoped-lint/commit/PR -> 1 JSON line
+   exec "${HOME}/.pi/agent/skills/ingest/scripts/run-ingest.sh" "${genome}"
+   ;;
+ "ollama list")
+   logger -t n8n-pi-wrap "ok: ollama list"
+   exec /usr/local/bin/ollama list
+   ;;
+ "ollama ps")
+   logger -t n8n-pi-wrap "ok: ollama ps"
+   exec /usr/local/bin/ollama ps
+   ;;
+ *)
+   logger -t n8n-pi-wrap "denied: ${cmd:-<empty>}"
+   echo "unauthorized command" >&2
+   exit 1
+   ;;
+esac