CodonFM public setup

Operate from the public CodonFM repository root. Support only the checked-in public v1 code and public Encodon checkpoints.

Instructions

1. Determine whether the user wants instructions, a downloaded checkpoint, a working model environment, or a combination of these.
2. For setup instructions or runtime work, inspect the supplied files and configuration directly: the runner, model configuration, Dockerfile, launcher, and requirements. Runtime setup requires a checkout; a supplied source archive is sufficient for preparing instructions.
3. Check the public-v1 boundaries. For an unsupported request, inspect MODEL_ARCHITECTURES in src/config.py, the model modules, and any requested script before explaining the boundary and ending that path. Runner argument choices alone do not establish implementation support.
4. Reuse available environments and checkpoints, and choose explicit paths from the user's project.
5. Follow only the requested paths below. Environment setup alone does not require a checkpoint download; download weights only when the request needs them and a suitable local checkpoint is unavailable.

Requested scope	Action and completion condition
Instructions only	Inspect the supplied source/configuration, provide the commands described under Reporting setup instructions, then stop. No installation or GPU verification is required.
Checkpoint only	Follow Download a checkpoint, check the downloaded files, report their paths, then stop. No Docker, GPU, or model runtime is required.
Working model environment	Follow Runtime preflight, choose the container or direct-host path, then Verify the runtime. Report the checks performed and any remaining limitations.