Can I use Europe PMC as a CLI?

Yes. KosmoKrator exposes a Europe PMC CLI through kosmo integrations:call and the provider shortcut command. Commands can return JSON for scripts, CI, and coding agents.

Can I expose Europe PMC through MCP?

Yes. The KosmoKrator MCP gateway can expose selected Europe PMC tools to clients such as Claude Code, Cursor, Codex, and other MCP-compatible tools.

Where are Europe PMC credentials stored?

Europe PMC credentials are configured in KosmoKrator's local integration settings and reused by CLI, Lua, and MCP gateway surfaces.

Can I deny write access for Europe PMC MCP tools?

Yes. Start the gateway with --write=deny for read-only clients, or use ask/allow only for trusted workspaces.

data

Europe PMC CLI for AI Agents

Use the Europe PMC CLI from KosmoKrator to call Europe PMC tools headlessly, return JSON, inspect schemas, and automate workflows from coding agents, scripts, and CI.

Europe PMC CLI Setup

Europe PMC can be configured headlessly with `kosmokrator integrations:configure europe-pmc`.

Install, configure, and verify

# Install KosmoKrator first if it is not available on PATH.
curl -fsSL https://raw.githubusercontent.com/OpenCompanyApp/kosmokrator/main/install.sh | bash

# Configure and verify this integration.
kosmokrator integrations:configure europe-pmc --enable --read allow --write ask --json
kosmokrator integrations:doctor europe-pmc --json
kosmokrator integrations:status --json

Credentials

Authentication type: No credentials none. Configure credentials once, then reuse the same stored profile from scripts, coding CLIs, Lua, and MCP.

No credentials are required.

Command Patterns

The generic command is stable across every integration. The provider shortcut is shorter for humans.

Generic CLI call

kosmo integrations:call europe-pmc.europe_pmc_search '{}' --json

Provider shortcut

kosmo integrations:europe-pmc europe_pmc_search '{}' --json

Discovery

These commands return structured output for coding agents that need to inspect capabilities before choosing a function.

Discovery commands

kosmo integrations:docs europe-pmc --json
kosmo integrations:docs europe-pmc.europe_pmc_search --json
kosmo integrations:schema europe-pmc.europe_pmc_search --json
kosmo integrations:search "Europe PMC" --json
kosmo integrations:list --json

Automation Contexts

The same configured command surface works in these environments. The command does not change unless the host wrapper, credentials, or permissions change.

CI Run integration calls from CI jobs with JSON output, explicit credentials, and predictable exit status. Cron Jobs Schedule repeatable integration workflows from cron while keeping credentials in KosmoKrator config. Shell Scripts Call integration functions from shell scripts with stable JSON input and output. Headless Automation Use KosmoKrator as a non-interactive integration runtime for local automations and wrappers. Coding Agents Let coding agents discover schemas and execute integration functions through CLI commands or MCP.

CLI Functions

Every function below can be called headlessly. Commands are highlighted, copyable, and scroll horizontally when payloads are long.

`europe-pmc.europe_pmc_search`

Search Europe PMC publications with GET /search.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_search '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_search '{}' --json

`europe-pmc.europe_pmc_search_post`

Search Europe PMC publications with POST /searchPOST for long queries.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_search_post '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_search_post '{}' --json

`europe-pmc.europe_pmc_article`

Get one article by source and external ID.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_article '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_article '{}' --json

`europe-pmc.europe_pmc_references`

List publications referenced by an article.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_references '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_references '{}' --json

`europe-pmc.europe_pmc_citations`

List publications citing an article.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_citations '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_citations '{}' --json

`europe-pmc.europe_pmc_database_links`

List biological database cross-references for an article.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_database_links '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_database_links '{}' --json

`europe-pmc.europe_pmc_labs_links`

List third-party external links for an article.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_labs_links '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_labs_links '{}' --json

`europe-pmc.europe_pmc_data_links`

Return consolidated Scholix data-literature links.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_data_links '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_data_links '{}' --json

`europe-pmc.europe_pmc_evaluations`

Get evaluations for an article.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_evaluations '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_evaluations '{}' --json

`europe-pmc.europe_pmc_full_text_xml`

Retrieve Open Access full-text XML by article ID.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_full_text_xml '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_full_text_xml '{}' --json

`europe-pmc.europe_pmc_book_xml`

Retrieve bookshelf XML by article ID.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_book_xml '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_book_xml '{}' --json

`europe-pmc.europe_pmc_supplementary_files`

Retrieve supplementary file archive for an article when available.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_supplementary_files '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_supplementary_files '{}' --json

`europe-pmc.europe_pmc_fields`

List indexed search fields.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_fields '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_fields '{}' --json

`europe-pmc.europe_pmc_profile`

Get result-count profiles by publication type and source.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_profile '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_profile '{}' --json

`europe-pmc.europe_pmc_metrics`

Read Europe PMC service metrics.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_metrics '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_metrics '{}' --json

`europe-pmc.europe_pmc_status_update_search`

Search article status updates.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_status_update_search '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_status_update_search '{}' --json

`europe-pmc.europe_pmc_annotations_by_article_ids`

Get annotations for one or more article IDs.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_annotations_by_article_ids '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_annotations_by_article_ids '{}' --json

`europe-pmc.europe_pmc_annotations_by_entity`

Find annotations tagging a specific entity.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_annotations_by_entity '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_annotations_by_entity '{}' --json

`europe-pmc.europe_pmc_annotations_by_provider`

Find annotations supplied by a provider.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_annotations_by_provider '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_annotations_by_provider '{}' --json

`europe-pmc.europe_pmc_annotations_by_relationship`

Find relationship annotations between two entities.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_annotations_by_relationship '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_annotations_by_relationship '{}' --json

`europe-pmc.europe_pmc_annotations_by_section_or_type`

Find annotations by article section and/or annotation type.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_annotations_by_section_or_type '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_annotations_by_section_or_type '{}' --json

`europe-pmc.europe_pmc_grants_search`

Search the GRIST grants database.

Read read

Parameters: none

Generic call

kosmo integrations:call europe-pmc.europe_pmc_grants_search '{}' --json

Shortcut

kosmo integrations:europe-pmc europe_pmc_grants_search '{}' --json

Function Schemas

Use these parameter tables when building CLI payloads without calling integrations:schema first.

europe-pmc.europe_pmc_search 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_search --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_search_post 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_search_post --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_article 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_article --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_references 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_references --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_citations 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_citations --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_database_links 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_database_links --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_labs_links 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_labs_links --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_data_links 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_data_links --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_evaluations 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_evaluations --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_full_text_xml 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_full_text_xml --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_book_xml 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_book_xml --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_supplementary_files 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_supplementary_files --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_fields 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_fields --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_profile 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_profile --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_metrics 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_metrics --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_status_update_search 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_status_update_search --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_annotations_by_article_ids 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_annotations_by_article_ids --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_annotations_by_entity 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_annotations_by_entity --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_annotations_by_provider 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_annotations_by_provider --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_annotations_by_relationship 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_annotations_by_relationship --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_annotations_by_section_or_type 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_annotations_by_section_or_type --json

Parameter	Type	Required	Description
No parameters.

europe-pmc.europe_pmc_grants_search 0 parameters

Schema command

kosmo integrations:schema europe-pmc.europe_pmc_grants_search --json

Parameter	Type	Required	Description
No parameters.

Permissions

Headless calls still follow the integration read/write permission policy. Configure read/write defaults with integrations:configure. Add --force only for trusted automation that should bypass that policy.