欧洲 PMC 工具

Configuration File: europe_pmc_tools.json Tool Type: Local Tools Count: 6

本页面包含 europe_pmc_tools.json 配置文件中定义的所有工具。

可用工具

EuropePMC_get_citations (Type: EuropePMCRESTTool)

Get citations for an article from Europe PMC. Citations are articles that cite the specified arti…

EuropePMC_get_citations tool specification

工具信息：

  • Name: EuropePMC_get_citations

  • Type: EuropePMCRESTTool

  • Description: Get citations for an article from Europe PMC. Citations are articles that cite the specified article. Requires a source (e.g., ‘MED’ for PubMed, ‘PMC’ for PMC) and article ID. Use EuropePMC_search_articles to find article IDs first.

参数：

  • source (string) (optional) Source database (e.g., ‘MED’ for PubMed, ‘PMC’ for PMC). Usually ‘MED’ for most articles.

  • article_id (string) (required) Article ID from the source database (e.g., PMID for MED source)

  • page_size (integer) (optional) Number of citations to retrieve (default: 25, max: 1000)

  • page (integer) (optional) Page number for pagination (default: 1)

示例用法：

query = {
    "name": "EuropePMC_get_citations",
    "arguments": {
        "article_id": "example_value"
    }
}
result = tu.run(query)

EuropePMC_get_full_text (Type: EuropePMCStructuredFullTextTool)

Retrieve and parse full-text XML from Europe PMC into structured sections. Returns title, abstrac…

EuropePMC_get_full_text tool specification

工具信息：

  • Name: EuropePMC_get_full_text

  • Type: EuropePMCStructuredFullTextTool

  • Description: Retrieve and parse full-text XML from Europe PMC into structured sections. Returns title, abstract, body sections (introduction, methods, results, discussion, conclusions), figure captions, table captions, and references as structured JSON. Accepts a PMC ID directly or a PMID (auto-resolved to PMC ID via Europe PMC search). Only works for open-access articles available in PubMed Central.

参数：

  • pmcid (string) (optional) PubMed Central ID (e.g., ‘PMC7096075’ or ‘7096075’). Preferred identifier.

  • pmid (string) (optional) PubMed ID (e.g., ‘32226684’). Will be auto-resolved to a PMC ID via Europe PMC search. Use when PMC ID is not known.

  • max_section_chars (integer) (optional) Maximum characters per section in the output. Longer sections are truncated.

示例用法：

query = {
    "name": "EuropePMC_get_full_text",
    "arguments": {
    }
}
result = tu.run(query)

EuropePMC_get_fulltext (Type: EuropePMCFullTextFetchTool)

Fetch a PMC article’s full text with deterministic fallbacks: Europe PMC fullTextXML → NCBI PMC O…

EuropePMC_get_fulltext tool specification

工具信息：

  • Name: EuropePMC_get_fulltext

  • Type: EuropePMCFullTextFetchTool

  • Description: Fetch a PMC article’s full text with deterministic fallbacks: Europe PMC fullTextXML → NCBI PMC OAI (JATS) → NCBI efetch (XML) → PMC HTML. Designed for machine consumption: returns structured provenance (source/format/content_type) and a retrieval_trace of every attempt.

参数：

  • fulltext_xml_url (string) (optional) Direct Europe PMC fullTextXML URL (optional).

  • pmcid (string) (optional) PMC ID (e.g., ‘PMC5234727’ or ‘5234727’).

  • source_db (string) (optional) Europe PMC source database (e.g., ‘MED’ or ‘PMC’). Used with article_id to derive a Europe PMC fullTextXML URL.

  • article_id (string) (optional) Europe PMC article ID within source_db (e.g., PMID for source_db=’MED’).

  • output_format (string) (optional) Return ‘text’ (default; extracted plain text) or ‘raw’ (raw XML/HTML).

  • include_raw (boolean) (optional) If true, also returns a bounded raw field (useful for downstream parsing).

  • max_chars (integer) (optional) Hard cap on characters returned in text (or content when output_format=’raw’).

  • max_raw_chars (integer) (optional) Hard cap on characters returned in raw when include_raw=true.

  • timeout (integer) (optional) HTTP timeout in seconds.

示例用法：

query = {
    "name": "EuropePMC_get_fulltext",
    "arguments": {
    }
}
result = tu.run(query)

EuropePMC_get_fulltext_snippets (Type: EuropePMCFullTextSnippetsTool)

Fetch an article’s full text (best-effort) and return bounded text snippets around provided terms…

EuropePMC_get_fulltext_snippets tool specification

工具信息：

  • Name: EuropePMC_get_fulltext_snippets

  • Type: EuropePMCFullTextSnippetsTool

  • Description: Fetch an article’s full text (best-effort) and return bounded text snippets around provided terms. Uses deterministic fallbacks: Europe PMC fullTextXML → NCBI PMC OAI (JATS) → NCBI efetch (XML) → PMC HTML. Returns a machine-readable retrieval_trace so callers can see exactly what succeeded/failed.

参数：

  • fulltext_xml_url (string) (optional) Direct Europe PMC fullTextXML URL (recommended when you already have it from EuropePMC_search_articles).

  • pmcid (string) (optional) PMC ID (e.g., ‘PMC11237425’ or ‘11237425’). If provided, the tool derives the Europe PMC fullTextXML URL.

  • source_db (string) (optional) Europe PMC source database (e.g., ‘MED’ or ‘PMC’). Used with article_id to derive the fullTextXML URL.

  • article_id (string) (optional) Europe PMC article ID within source_db (e.g., PMID for source_db=’MED’).

  • terms (array) (optional) Terms to search for in the extracted full text (case-insensitive).

  • keywords (array) (optional) Alias for terms (case-insensitive). Provided for backwards/UX compatibility.

  • window_chars (integer) (optional) Context window size (characters) before and after each match.

  • max_snippets_per_term (integer) (optional) Maximum number of snippets returned per term.

  • max_total_chars (integer) (optional) Hard cap on total characters returned across all snippets.

示例用法：

query = {
    "name": "EuropePMC_get_fulltext_snippets",
    "arguments": {
    }
}
result = tu.run(query)

EuropePMC_get_references (Type: EuropePMCRESTTool)

Get references (bibliography) for an article from Europe PMC. References are articles cited by th…

EuropePMC_get_references tool specification

工具信息：

  • Name: EuropePMC_get_references

  • Type: EuropePMCRESTTool

  • Description: Get references (bibliography) for an article from Europe PMC. References are articles cited by the specified article. Requires a source (e.g., ‘MED’ for PubMed, ‘PMC’ for PMC) and article ID. Use EuropePMC_search_articles to find article IDs first.

参数：

  • source (string) (optional) Source database (e.g., ‘MED’ for PubMed, ‘PMC’ for PMC). Usually ‘MED’ for most articles.

  • article_id (string) (required) Article ID from the source database (e.g., PMID for MED source)

  • page_size (integer) (optional) Number of references to retrieve (default: 25, max: 1000)

  • page (integer) (optional) Page number for pagination (default: 1)

示例用法：

query = {
    "name": "EuropePMC_get_references",
    "arguments": {
        "article_id": "example_value"
    }
}
result = tu.run(query)

**EuropePMC_search_articles**（类型：EuropePMCTool）

Search for articles on Europe PMC including abstracts and metadata. Europe PMC supports fielded q…

EuropePMC_search_articles 工具规范

工具信息：

  • 名称：EuropePMC_search_articles

  • 类型：EuropePMCTool

  • Description: Search for articles on Europe PMC including abstracts and metadata. Europe PMC supports fielded queries for indexed full text (e.g., BODY:”term”) but only for records where Europe PMC has full text indexed (HAS_FT:Y). Use require_has_ft/fulltext_terms to avoid confusing ‘has a full-text link somewhere’ with ‘full text searchable in Europe PMC’.

参数：

  • query (string) (required) Search query for Europe PMC. Supports Lucene-like fielded syntax (e.g., BODY:”term”, INTRO:”term”, METHODS:”term”).

  • ``limit``（整数）（可选）返回的文章数量。此参数设置从 Europe PMC 检索的文章最大数量。

  • require_has_ft (boolean) (optional) If true, appends HAS_FT:Y to the query to restrict results to records where Europe PMC has full text indexed. This is NOT the same as having a link to free full text elsewhere (e.g., PMC) and is often the key reason body-only keywords cannot be found via Europe PMC search.

  • fulltext_terms (array) (optional) Optional list of terms that must occur in the indexed full text (Europe PMC BODY field). When provided, the tool adds a BODY:”…” clause and automatically enables require_has_ft.

  • enrich_missing_abstract (boolean) (optional) If true, best-effort fills missing abstracts by fetching Europe PMC fullTextXML (bounded to a few results).

  • extract_terms_from_fulltext (array) (optional) Optional list of terms to extract from full text (open access only). When provided, automatically fetches fullTextXML for open-access articles and returns snippets around these terms. Terms are processed in batches of 5 internally, so any number of terms is accepted. Bounded to first 3 OA articles to avoid latency. Returns snippets in a ‘fulltext_snippets’ field for each article.

  • page_size (integer) (optional) Alias for limit — number of results to return

示例用法：

query = {
    "name": "EuropePMC_search_articles",
    "arguments": {
        "query": "example_value"
    }
}
result = tu.run(query)