/pylabrobot

name: pylabrobot
description: Develops and reviews PyLabRobot lab-automation resources, liquid-handling plans, offline simulations, and supported-device integrations. Supports PyLabRobot protocols and API questions; keep physical execution behind an explicit operator safety gate.
license: MIT
compatibility: Verified against PyLabRobot 0.2.2 on Python 3.9+. Bundled planning CLIs require only Python 3.11+ and make no serial, USB, or network connections. Physical devices need model-specific extras, configuration, calibration, and trained operator approval.
allowed-tools: Read Write Edit Bash
metadata:
  version: "1.5"
  skill-author: "K-Dense Inc."
  pylabrobot-version: "0.2.2"
  last-reviewed: "2026-10-01"

PyLabRobot

Use PyLabRobot's hardware-agnostic frontends, resource tree, trackers, and device-specific backends to develop laboratory automation. Default to local manifest validation, bookkeeping, and the software-only chatterbox backend.

Verified snapshot

• PyPI stable: **`PyLabRobot==0.2.2`**, released **2026-07-30**.
• Upstream requirement: **Python >=3.9**; runtime checks here used **Python 3.13**.
• Hosted `/stable/` pages mix 0.2.1 API pages with development documentation.

GitHub has no `v0.2.2` tag and its changelog has no 0.2.2 section. Use the released wheel/source distribution for the tested contract, not the URL label.

• Released liquid-handler backends include `STARBackend`, `VantageBackend`,

`EVOBackend`, `OpentronsOT2Backend`, and the software-only `LiquidHandlerChatterboxBackend`.

• MicroSpin and `Plate.stacking_z_height` **are present in 0.2.2**, despite

being listed under `Unreleased` in the current changelog. Newer development APIs, including the `track=` Hamilton deck keyword, are not this release.

• See the [release and transport review](references/review.md) for source

hashes, tested behavior, and the known OT-2 cancellation mismatch.

Non-negotiable hardware boundary

Never connect to, initialize, home, move, heat, shake, spin, pump, open/close, or otherwise command physical equipment automatically. Do not turn a simulation plan into a live backend merely by changing an environment variable, config value, or import.

Before any separately authorized live run, require a trained human to:

1. Explicitly confirm the exact backend, device identity, firmware, transport, deck, and protocol revision. 2. Reconcile the physical deck against the resource tree, including carriers, adapters, lids, plates, tip racks, waste, labware orientation, barcodes, and every occupied coordinate. 3. Verify calibration, teaching, motion envelopes, collision risks, gripper or channel clearances, and all aspiration/dispense coordinates. 4. Review source identity and actual fill volume, dead volume, destination capacity, tip type/capacity/filter compatibility, channel mapping, units, heights, rates, liquid class, blowout/mixing, and contamination boundaries. 5. Confirm guards, doors, waste capacity, containment, emergency stop readiness, PPE, biosafety/chemical controls, and a safe abort/recovery procedure. 6. Approve a slow dry run or nonhazardous commissioning run when anything is new or changed.

Tracker state is **bookkeeping**, not sensing. It cannot prove that liquid or a tip is physically present. After a backend error, tracker rollback describes software state; it does not reverse a physical aspiration, dispense, or tip movement that partly completed. Preserve the error/channel details and have the operator reconcile tips and source/destination volumes before resuming. Do not blindly retry the failed operation from the pre-error plan. The [0.2.2 liquid-handler implementation](https://pypi.org/project/PyLabRobot/0.2.2/#files) commits or rolls back trackers according to reported operation success. The Visualizer renders resource/tracker events; it does not model physics. Chatterbox prints planned operations; it does not prove calibration, reachability, collision freedom, liquid behavior, or device state.

Required intake

Do not guess any of these:

• Exact device model, installed options, firmware, computer/OS, and transport.
• Stable PyLabRobot version and required extras.
• Deck/deck origin, carriers, adapters, resource definitions, dimensions,

coordinates, orientations, and motion clearances.

• Plate/tube/reservoir capacities and dead volumes; initial physical volumes.
• Tip model, filter, fitting, capacity, rack state, channel count, and channel

mapping.

• Transfer units (`uL`, `mm`, `uL/s`, `s`), heights, rates, mixing, air gaps,

blowout, liquid properties, and validated vendor liquid class.

• Contamination policy, controls, waste handling, operator interventions,

acceptance criteria, and recovery procedure.

If information is missing, produce an assumptions/blockers list and an offline draft only.

Reproducible install

For offline API inspection and chatterbox simulation:

uv venv --python 3.13 .venv-pylabrobot
uv pip install --python .venv-pylabrobot/bin/python "PyLabRobot==0.2.2"

On Windows, use `.venv-pylabrobot\Scripts\python.exe`. Do not install hardware extras until the user names the device and explicitly approves its transport dependencies. Then inspect the matching release source and device page before considering a pin such as `"PyLabRobot[serial]==0.2.2"` or `"PyLabRobot[usb]==0.2.2"`.

Offline-first workflow

Run from the repository root. Every bundled CLI uses strict, bounded UTF-8 JSON/CSV, local non-symlink paths, fixed allowlists, and JSON output. None can select a live backend.

python3 skills/pylabrobot/scripts/validate_manifest.py \
  --input tests/pylabrobot/fixtures/protocol_manifest.json

python3 skills/pylabrobot/scripts/check_deck_geometry.py \
  --input tests/pylabrobot/fixtures/protocol_manifest.json

python3 skills/pylabrobot/scripts/plan_transfers.py \
  --manifest tests/pylabrobot/fixtures/protocol_manifest.json \
  --transfers tests/pylabrobot/fixtures/trans