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CD proteinmpnn-nim

Run ProteinMPNN inverse folding via NVIDIA NIM to design protein sequences for a target backbone. Sends user-provided PDB files and design parameters to NVIDIA's hosted API, authenticated with an environment API key, or to a user-selected local NIM. Use for sequence design, backbone redesign, fixed chains and residues, omit_AAs, sampling temperature, soluble model, local Docker, and multi-FASTA output.

ClawHub Agent Skills author: NVIDIA 1 file body ≈ 1 844 tokens Open the sourceclawhub.ai↗ analyzed 6 d ago

Run ProteinMPNN inverse folding via NVIDIA NIM to design protein sequences for a target backbone.

As a process D 36/100 · Unfinished process — References files that are not bundled: references/api.md, scripts/design.py, references/examples.md

IntegrationDockerInfrastructureData and analyticstype and topics are labelled automatically from the skill text
Runs in: OpenClaw Claude / Claude Code ChatGPT / Codex Gemini CLI Cursor GitHub Copilot / VS Code Qwen Code Kimi Code CLI Z.ai (GLM) DeepSeek (Deep Code) Mistral Vibe LangChain (deepagents) Goose OpenCode
JSON
Technical rating
C
83/100
safety, quality, tests
Safety 60%
95
Quality 40%
66
Run on models
none yet
Process rating
D
36/100
Unfinished process
References files that are not bundled: references/api.md, scripts/design.py, references/examples.md
Tools and files w 18
0
Result and completion w 14
0
Inputs and preconditions w 11
0
the three weakest of ten parameters · all ten

What is at stake

Medium-severity findings: the skill is probably honest, but read what alarmed the scanner.

Broad scope medium severity

Below is the worst case for this category. The finding here is medium: the guard saw a sign, not a proof.

If you install

The skill asks for more than the task needs: broad tool access, credential environment variables, binaries. Every extra permission widens the damage from a mistake or a compromise.

For the author

Narrow allowed-tools and the variable list to the minimum; replace binaries with readable sources or scripts.

How to improve

  1. The text references files that are not there: add them or drop the references.
For the model run — optional
  • Your own cases (evals/evals.json, 4–6 real requests with expected answers): the full check would then run those instead of a model-drafted suite.
  • A spec.yaml with trigger phrases and assertions — a behaviour contract for CI; `skilltest init` writes a template.

Guard findings · 1

✓ No critical or high findings

Medium and low: 1
  • medium Broad scope meta-broad-allowed-tools SKILL.md:1
    Broad tool permissions pre-approved: Bash
    allowed-tools: Bash Read Write AskUserQuestion

Files scanned: 1. Evidence is masked. Grey chips explain why severity was lowered.

Against the Agent Skills spec

  • warning missing-ref reference to a missing file: references/api.md
  • warning missing-ref reference to a missing file: scripts/design.py
  • warning missing-ref reference to a missing file: references/examples.md
  • warning missing-ref reference to a missing file: references/validation.md
  • warning missing-ref reference to a missing file: references/science.md
  • warning missing-ref reference to a missing file: references/parameters.md
  • note frontmatter-key unknown frontmatter key "permissions"

Process rating: all ten parameters 36/100

Will not run. References files that are not bundled: references/api.md, scripts/design.py, references/examples.md
  • 0Tools and files. 6 referenced file(s) missing: references/api.md, scripts/design.py, references/examples.md
  • 0Result and completion. Does not say what the result is
  • 0Inputs and preconditions. Does not say what the process needs to start
  • 20When it triggers. No condition that starts the skill
  • 30Running it twice. 4 mutating operations with no state check
  • 40Consistency. Frontmatter name (proteinmpnn-nim) differs from the folder (bionemo-proteinmpnn-nim)
  • 65Failures and branches. 3 branches
  • 100Steps. 21 steps
  • 100Execution cost. Instruction body is 1844 tokens
  • 100Progress reporting. Reports progress

Everything here is measured from the skill text rather than judged by a model, so the numbers are checkable. A parameter weighs more when it is a more common reason for the process to stall.

Quality signals

  • +5Description has no quoted example phrases that should trigger the skill
  • +4Description does not say when NOT to use the skill (false activations)
  • +3Output format is not stated: the model decides each time
  • -4Absolute local paths (C:\Users, /home/…): not portable
  • -2localhost URLs: will not work for another user
  • +2Single-language instructions
  • +3Description length 405: enough signal without eating the budget
  • +4Structure: 8 headings
  • +3Step-by-step instructions: 21 items
  • +4Has examples (2 code blocks)
  • +1License stated

Quality base 70; lint remarks subtract, signals add up to 100. Result: 66.