biomodels.model.files
List all downloadable file representations for a BioModels model by accession ID. Returns the main SBML file (primary format, compatible with COPASI, libSBML, JWS Online, Tellurium), plus auto-generated alternative formats: BioPAX Level 2 and 3 (OWL/RDF for pathway databases), MATLAB/Octave simul...
This record as markdown: /tools/io-github-whiteknightonhorse-apibase/biomodels.model.files.md
What biomodels.model.files does on Apibase
AI agents call biomodels.model.files to retrieve information from Apibase without modifying anything. It is typically the context-gathering step in research, monitoring, and reporting workflows, before the agent takes action elsewhere.
| Parameter | Type | Required | Description |
|---|---|---|---|
model_id | string | Yes | BioModels accession identifier (e.g. "BIOMD0000000001"). Returns all downloadable file representations: SBML (primary), BioPAX levels 2 and 3, MATLAB/Octave scr |
Parameters from the server's own tool schema.
Why biomodels.model.files is rated Low
Tool retrieves and lists publicly available model files with download metadata; no creation, modification, deletion, or execution occurs.
From the tool's definition List all downloadable file representations, returns filenames, descriptions, URLs.
Attacks that exploit this kind of access
The rule that runs biomodels.model.files safely
PolicyLayer is an MCP gateway: it sits between your AI agents and Apibase, and checks every tool call against a rule you set before the call runs. Nothing changes on the server itself. For biomodels.model.files, this is the rule to start with:
biomodels.model.files is read-only, so it stays allowed. Everything else on the server is denied unless you say otherwise.
The button opens the PolicyLayer dashboard: create your workspace, connect Apibase, apply this rule, and every biomodels.model.files call is checked against it from then on.
Questions about biomodels.model.files
List all downloadable file representations for a BioModels model by accession ID. Returns the main SBML file (primary format, compatible with COPASI, libSBML, JWS Online, Tellurium), plus auto-generated alternative formats: BioPAX Level 2 and 3 (OWL/RDF for pathway databases), MATLAB/Octave simulation scripts (.m files), and any author-supplied supplementary files. Each entry includes filename, description, MIME type, file size in bytes, MD5 checksum, and the direct download URL. Use to retrieve simulation-ready model files for computational biology workflows. CC0 Public Domain — EMBL-EBI BioModels Database. It is categorised as a Read tool in the Apibase MCP Server, which means it retrieves data without modifying state.
biomodels.model.files accepts 1 parameter: model_id. Required: model_id. The full parameter table on this page comes from the server's own tool schema.
Register the Apibase MCP server in PolicyLayer and add a rule for biomodels.model.files: allow, deny, rate-limit, or require approval. Point your MCP client at the PolicyLayer proxy URL and the rule is enforced on every call, before it reaches Apibase. Nothing to install.
biomodels.model.files is a Read tool with low risk. Read-only tools are generally safe to allow by default.
Yes. Add a rate_limit block to the biomodels.model.files rule in your PolicyLayer policy. For example, setting max: 10 and window: 60 limits the tool to 10 calls per minute. Rate limits are tracked per agent session and reset automatically.
Set action: deny in the PolicyLayer policy for biomodels.model.files. The AI agent will receive a policy violation error and cannot call the tool. You can also include a reason field to explain why the tool is blocked.
biomodels.model.files is provided by the Apibase MCP server (apibase-mcp-client). PolicyLayer sits as a proxy in front of this server to enforce policies before tool calls reach the server.
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