bioc-fulltext-fetch SKILL.md skillA
bioc-fulltext-fetch from ethanyoq/skill-hub is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add ethanyoq/skill-hub/bioc-fulltext-fetch@git:20260912.c74de71Pins git:20260912.c74de71 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- ethanyoq/skill-hub
- Path
archives/user-installed-skills/bioc-fulltext-fetch/7e9571b254406b2d/bioc-fulltext-fetch/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260912.c74de71, committed Sep 12, 2026
- Size
- 11,021 bytes
- Repository stars
- 11
- License
- MIT
给定 PMID/PMCID 取结构化全文（NLM BioC XML/JSON）。封装 BioC PubMed（标题+摘要）和 BioC PMC OA（开放获取全文）端点，输出按章节切分的段落、表格上下文、RAG 友好 chunk，适合大批量入向量库。Fetches structured fulltext from NLM BioC API for PMID/PMCID, outputs section-segmented paragraphs and RAG-ready chunks. 触发词：全文抽取 / BioC / RAG 入库 / 文献全文 / PMC 开放获取 / structured fulltext / 段落抽取 / 表格抽取 / chunking / fulltext to vector store / paragraph extraction.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# BioC Fulltext Fetch
封装 NLM BioC API，把 PubMed / PMC 文献转成 RAG 友好的结构化全文 chunk。**只做全文抽取与切片，不做检索、不做实体标注、不做向量化。**
## 1. 何时使用
触发场景：
- "把这批 PMID 的全文取下来准备入 ChromaDB / 我有 PMCID 列表要按章节切分做 RAG"
- "提取 Methods 章节段落 / 找出表格周围的语义文本"
- "Build vector index from PMC open access papers"
- "PMC1234567 的全文段落 + 章节标签"
- "把 100 篇血液 IFI PMID 入向量库"
不要使用本 skill：
- 用户只要标题/摘要纯文本 → 用 `pubmed-eutils` efetch
- 用户要做语义检索找文献 → 用 `pubmed-search` / `europepmc-search`
- 用户要实体标注（基因/疾病/化合物）→ 用 `pubtator-entity-search`（可在本 skill 输出之上叠加，不替代）
- 用户要做证据等级评分 → 用 `medical-evidence-grading`（其内部会调用本 skill 抽 Methods 段落）
## 2. 跨 skill 协作（显式）
| 上游 / 下游 skill | 协作方式 |
|------------------|----------|
| `pubmed-eutils.elink_pubmed_to_pmc()` | **上游**，把 PMID 列表转换成 PMCID 列表，喂给本 skill |
| `europepmc-search.get_full_text_links()` | **替代源**，当 PMC OA 不可用时回退到 Europe PMC 的开放获取链接 |
| `pubtator-entity-search` | **后置叠加**，在本 skill 产的 chunk 上做实体标注，不替代本 skill |
| `medical-evidence-grading` | **下游**，调 `extract_paragraphs` 取 Methods 段落做 sample size / study design 检测 |
典型 pipeline：
```
europepmc-search ──► PMID list ──► pubmed-eutils.elink ──► PMCID list
│
…Read the whole file at its exact version.
How to install
mdr add ethanyoq/skill-hub/bioc-fulltext-fetch@sha256:8564f44b7690ea3bThe line at the top of this page pins the label git:20260912.c74de71, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_xvx4ndupaahbftnk)
4 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 1 version of this file, committed on Sep 12, 2026.
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (11021 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
ethanyoq/skill-hub · 11 stars · license MIT · pushed 2026-11-07 · branch mine
API
GET https://markdownregistry.com/api/v1/artifacts/art_xvx4ndupaahbftnk GET https://markdownregistry.com/api/v1/resolve?ref=ethanyoq/skill-hub/bioc-fulltext-fetch GET https://markdownregistry.com/api/v1/blob/8564f44b7690ea3be10d7275abe7ab1e9ee429bed028d781c3cf7e386dc0a776
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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