CondonFM Skills

[ohadmo]

This repository is read-only and does not accept Pull Requests. Please open an Issue for reproducible bugs.

[github-actions]

Thanks for your interest. This repository is read-only and does not accept Pull Requests. Please open an Issue for reproducible bugs.

[github-actions]

Thanks for your interest. This repository is read-only and does not accept Pull Requests. Please open an Issue for reproducible bugs.

[ohadmo]

/nvskills-ci

[ohadmo]

@greptileai

[greptile-apps]

Confidence Score: 5/5

The PR appears safe to merge, with no actionable new correctness, security, or repository-rule violations identified.

Summary

• Documents supported public Encodon workflows and explicitly excludes unavailable Decodon and missense functionality.
• Adds reproducible evaluation data, checkpoint metadata, and a standard-library RiboNN preparation helper.
• Revises the RiboNN remote download to require a direct successful HTTPS response and adds tests for status and transport failures.
• Extends public-skill contract tests and task discovery for the new skill suite.

Diagram

%%{init: {'theme': 'neutral'}}%%
flowchart LR
    U[User request] --> S{Selected CodonFM skill}
    S --> A[Setup]
    S --> B[Score variants]
    S --> C[Extract embeddings]
    S --> D[Fine-tune Encodon]
    A --> P[Validate environment and checkpoint]
    B --> V[Validate variant input]
    C --> E[Validate coding-sequence CSV]
    D --> R[Prepare and validate labeled data]
    R --> H[Optional pinned RiboNN HTTPS source]
    P --> X[CodonFM runner command]
    V --> X
    E --> X
    R --> X
    X --> O[Verified outputs or prerequisite guidance]

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_{Reviews (3) · Last reviewed commit: "fix tier1"}

[ohadmo]

/nvskills-ci

[ohadmo]

/nvskills-ci

[ohadmo]

@greptileai

[ohadmo]

/nvskills-ci

[ohadmo]

/nvskills-ci

[ohadmo]

/nvskills-ci