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AC waypoint-bio

Use when working with Outpost Bio's open microbiome foundation models - the Waypoint checkpoints (Waypoint-6m, Waypoint-45m, Waypoint-170m), the Atlas pretraining corpus, the Compass eight-task benchmark, or the `waypoint` CLI from the `waypoint-bio` package. Covers embedding microbiome samples, fine-tuning on taxonomic abundance data, benchmarking a checkpoint on Compass, pretraining a GPT-2 model on taxonomic abundance profiles, and converting MetaPhlAn, Kraken2, QIIME 2, or MGnify abundance tables into waypoint format.

synthetic-sciences/OpenScience Agent Skills author: synthetic-sciences Apache-2.0 7 files · 2 scripts body ≈ 3 199 tokens Open the sourcegithub.com↗ analyzed 5 d ago

Use when working with Outpost Bio's open microbiome foundation models - the Waypoint checkpoints (Waypoint-6m, Waypoint-45m, Waypoint-170m), the Atlas…

As a process C 50/100 · Has gaps — weak spots: result and completion, when it triggers, inputs and preconditions

ProcedureAI and agentstype and topics are labelled automatically from the skill text
Runs in: 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) OpenClaw Goose OpenCode
JSON
Technical rating
A
97/100
safety, quality, tests
Safety 60%
100
Quality 40%
92
Run on models
none yet
Process rating
C
50/100
Has gaps
Result and completion w 14
0
Inputs and preconditions w 11
0
When it triggers w 12
20
the three weakest of ten parameters · all ten

How to improve

    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 · 0

    ✓ No critical or high findings

    Files scanned: 7. Evidence is masked. Grey chips explain why severity was lowered.

    Against the Agent Skills spec

    ✓ No remarks against the Agent Skills spec

    Process rating: all ten parameters 50/100

    • 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. 6 mutating operations with no state check
    • 50Failures and branches. 0 branches, has a failure section
    • 60Tools and files. Uses tools (bash, web) that frontmatter does not declare
    • 100Steps. 20 steps
    • 100Consistency. Name and required fields are in place
    • 100Execution cost. Instruction body is 3199 tokens
    • 100Progress reporting. Reports progress
    • low 10 top-level sections: this looks like several domains in one skill

    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
    • +2Single-language instructions
    • +3Description length 527: enough signal without eating the budget
    • +4Structure: 17 headings
    • +3Step-by-step instructions: 20 items
    • +4Has examples (9 code blocks)
    • +4Reference files are cited in the instructions (4 of 4)
    • +3All 2 scripts are documented
    • +1License stated

    Quality base 70; lint remarks subtract, signals add up to 100. Result: 92.