io.github.smaniches/alphafold-sovereign-mcp

What we checked

Six static checks, weighted by risk. Every result reflects only what could be observed in the published package and repository — never intent.

• Injection surface

  unscannable25% of grade

  Tool descriptions/manifest scanned for instruction-injection patterns (imperatives at the model, hidden text, 'ignore previous', data-exfil URLs).

  No tool descriptions, server instructions, prompts, or resources were fetched; nothing to scan for injection.

• Supply chain

  fail25% of grade

  Package provenance: namespace verification, repo linkage, maintainer count, account age, postinstall scripts, typosquat distance.

  Python build script executes at build time: network call in build script

• Credential hygiene

  pass15% of grade

  How the server takes secrets (env vs plaintext config vs hardcoded); secrets appearing in tool schemas.

  Reads secrets from the environment (e.g. src/alphafold_sovereign/clients/_base.py) — the recommended intake shape. PASS = no static red flag; static analysis cannot prove the code honors env-based secret handling at runtime.

• Permission scope

  pass15% of grade

  Declared tools vs. breadth (filesystem, network, exec); flags shell-exec and unbounded filesystem access.

  Network egress present (src/alphafold_sovereign/clients/_base.py: outbound HTTP/socket call) — expected for most servers and not a finding on its own. No shell-exec, unbounded/sensitive filesystem, or download-and-run primitives found in scanned source. PASS = no static red flag. Static scanning is blind to code fetched or executed at runtime.

• Version behavior

  fail10% of grade

  Diff of tool definitions between versions; new permissions or changed descriptions in a patch release (the postmark-mcp class).

  vs prior 1.4.7 (patch bump): new capability primitive(s) in source: http-client, subprocess; new hardcoded outbound host/BCC destination(s): alphafold.ebi.ac.uk, anywhere.test, api.disgenet.com, api.example.com, api.example.test, api.github.com, api.monarchinitiative.org, api.platform.opentargets.org, demo.test, eutils.ncbi.nlm.nih.gov, evil.example, example.com, example.invalid, example.org, files.example.org, github.com, gnomad.broadinstitute.org, ontology.jax.org, platform.opentargets.org, purl.obolibrary.org, pypi.org, rest.ensembl.org, smaniches.github.io, token.actions.githubusercontent.com, topologica.ai, www.disgenet.com, www.ebi.ac.uk, www.ncbi.nlm.nih.gov, www.wwpdb.org, x, x.test.

• Transport config

  warn10% of grade

  Remote servers: TLS and auth mode (none/token/OAuth). Local servers: whether the manifest indicates it phones home.

  manifest/source references tracking behavior — disclosure