Grades are a hygiene check, not a security guarantee.

MCP, MCP server

Alphafold Sovereign Mcp

Alphafold Sovereign Mcp, an MCP server listed in the PlugVet directory.

Compatibility: Not stated.

Grade B

Minor issues only, no Medium or High. Worth a quick look at the findings below before installing.

Graded by PlugVetRubric v2

Not a guarantee. A hygiene check of the source at the commit shown, not a security audit.

NETWORK_NO_FIXED_HOST SECRETS_PATH_UNCONFIRMED INSTALL_DOCUMENTED_INSTALLER SECRETS_ENV_READ OBFUSCATION_FILE_OVER_READ_CAP

Why this grade

  • NETWORK_NO_FIXED_HOST Low

    Makes a network call whose host is not written as a fixed address.

    _archive/legacy/fetcher.py, line 58 fetch_time: Time taken for fetch (seconds)

  • SECRETS_PATH_UNCONFIRMED Low

    The Secrets check reports a credential or environment file, but no quoted line shows a recognisable path.

    src/alphafold_sovereign/clients/clinvar.py, line 119 self._api_key = ncbi_api_key or os.environ.get("NCBI_API_KEY", "")

  • INSTALL_DOCUMENTED_INSTALLER Note

    Documentation shows an installer that pipes a download into a shell.

    CONTRIBUTING.md, line 91 curl -LsSf https://astral.sh/uv/install.sh | sh

  • SECRETS_ENV_READ Note

    Reads an environment variable whose name contains KEY, SECRET, TOKEN, PASSWORD or CREDENTIAL.

    src/alphafold_sovereign/clients/clinvar.py, line 119 self._api_key = ncbi_api_key or os.environ.get("NCBI_API_KEY", "")

  • OBFUSCATION_FILE_OVER_READ_CAP Note

    A file was over the read cap and was not fully read.

    uv.lock, line 1 version = 1

Any High, or two or more Medium findings, give D. One Medium gives C. Low findings or a security Note give B. Each code names a finding behind the letter.

Grades are a hygiene check of the source at the commit shown, on the date checked, not a security audit or a guarantee. The free directory grades are automated. Before release, a PlugVet engineer reviews every paid report and any grade we hold back, including all F grades, against the source code and the evidence we quote.

What was checked

Plain notes from the hygiene checks.

  • Permissions

    Pass

    No shell or command execution found, and no extra permission was declared.

  • Install and update

    Note

    The docs document an installer that pipes a download into a shell.

    INSTALL_DOCUMENTED_INSTALLER

    CONTRIBUTING.md, line 91

    curl -LsSf https://astral.sh/uv/install.sh | sh

  • Network

    Concern

    can reach a host that is not written as a fixed address.

    NETWORK_NO_FIXED_HOST

    _archive/legacy/fetcher.py, line 58

    fetch_time: Time taken for fetch (seconds)

    _archive/legacy/fetcher.py, line 179

    def fetch(

    _archive/legacy/fetcher.py, line 198

    skip_cache: Force network fetch (bypass cache check)

    Show more

    _archive/legacy/fetcher.py, line 270

    with urllib.request.urlopen(

    _archive/legacy/fetcher.py, line 373

    results[uniprot_id] = self.fetch(uniprot_id, file_type)

    _archive/legacy/fetcher.py, line 395

    with urllib.request.urlopen(

    scripts/install_mcp_publisher.sh, line 50

    curl --fail --silent --show-error --location \

    scripts/replicate.sh, line 111

    for cmd in curl jq python3 cosign; do

    scripts/replicate.sh, line 121

    curl -fsSL "https://pypi.org/pypi/${PKG_NAME}/json" -o "$PROJECT_META" \

    scripts/replicate.sh, line 132

    curl -fsSL "https://pypi.org/pypi/${PKG_NAME}/${VERSION}/json" -o "$RELEASE_META" \

  • Secrets

    Concern

    reads a credential or environment file.

    SECRETS_ENV_READ SECRETS_PATH_UNCONFIRMED

    src/alphafold_sovereign/clients/clinvar.py, line 119

    self._api_key = ncbi_api_key or os.environ.get("NCBI_API_KEY", "")

    src/alphafold_sovereign/clients/disgenet.py, line 62

    self._api_key = api_key or os.environ.get("DISGENET_API_KEY", "")

    .dockerignore, line 13

    _archive/

  • Agent instructions

    Pass

    No instruction to ignore earlier instructions or to hide a step.

  • Obfuscation

    Note

    a file was over the read cap and was not fully read.

    OBFUSCATION_FILE_OVER_READ_CAP

    uv.lock, line 1

    version = 1

    _archive/legacy/alphafold_mcp.py, line 1

    # SPDX-License-Identifier: Apache-2.0

    examples/golden/01-brca1-c5266dup/cassette.json, line 1

    {"example":"01-brca1-c5266dup","tool":"generate_variant_clinical_report","input":{"hgvs":"BRCA1:c.5266dupC"},"recorded_at":"2026-07-14T00:11:56Z","note":"Real upstream responses ca

    Show more

    examples/golden/02-tp53-r175h/cassette.json, line 1

    {"example":"02-tp53-r175h","tool":"generate_variant_clinical_report","input":{"hgvs":"TP53:p.Arg175His"},"recorded_at":"2026-07-14T00:11:56Z","note":"Real upstream responses captur

    examples/golden/03-egfr-l858r/cassette.json, line 1

    {"example":"03-egfr-l858r","tool":"generate_variant_clinical_report","input":{"hgvs":"EGFR:p.Leu858Arg"},"recorded_at":"2026-07-14T00:11:56Z","note":"Real upstream responses captur

  • Licence

    Pass

    A licence file is present (LICENSE).

  • Maintainer activity

    Pass

    The latest commit is within the last 365 days.

Get the full report on this tool, £49

Note

Hygiene check of commit 84aca610548f. The docs document an installer that pipes a download into a shell. can reach a host that is not written as a fixed address. reads a credential or environment file. a file was over the read cap and was not fully read.

Date and source

Date checked:

View source

github.com

Commit graded: 84aca610548f4245dd859701b0a82fb660f5691f

This link goes to the original host. PlugVet does not host or check what you download from there, and installing it is your own decision and risk.

Read how this letter is chosen