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setup-colabdesign-remote-tool

Set up, launch, validate, and troubleshoot the ColabDesign (BindCraft binder design) ToolUniverse remote tool and optionally relay it through ToolUniverse Connect. Use when deploying or auditing this implementation.

skills/setup-colabdesign-remote-tool/SKILL.md

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# Set up ColabDesign as a remote tool

> Validation status (2026-10-02): BindCraft's binder-hallucination step on ColabDesign 1.1.3 and AlphaFold-Multimer v3 ran on the NVIDIA GB10 (aarch64, cc 12.1, driver 580.173.02) under the optimization kit's `exact` mode, on jax/jaxlib 0.6.0 with CPython 3.10. **It needs no alignment and contacts no external service at request time**: the design step feeds AlphaFold the target's backbone as a template and a single sequence for the binder, so there is nothing to search or fetch. **Only the design step runs** — no MPNN redesign, reprediction, PyRosetta relaxation or filtering — so the sequences it returns are a hallucination's output, not filtered final designs. **Nobody holds the model**: upstream clears the device and rebuilds it for every trajectory, so what a held worker keeps is the imports, the CUDA context and the compile cache. **This skill is UNVERIFIED: the acceptance ladder, the 400-token row and the example run through the live endpoint were not completed** (stopped by the host memory guard). Measured so far: the smoke case is byte-identical between the kit's stock design body, the resident worker under `off` and under `exact` (design.pdb sha256 d2a404a3...), peak_pool 4.0 GiB at 100 and 200 tokens. Public publication, cross-user isolation, concurrency, recovery and scientific accuracy are unvalidated; keep this deployment private.

## Prerequisites

- Run from the ToolUniverse repository root on Linux with Python 3.12.3.
- A CUDA GPU is required. This provider holds its worker resident between requests.
- The model environment needs **Python 3.10** (`uv venv --seed --managed-python --python 3.10.18 ~/colabdesign-venv`).
- Keep provider data, weights, caches, and credentials outside Git.
- Bind to loopback. A non-loopback bind requires TOOLUNIVERSE_API_TOKEN; never put it in arguments or results.

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