Atlas / MCP servers / wavelovey / Pubmed Search

Pubmed SearchCAUTION

mcp/wavelovey/pubmed-search

MCP PubMed Search Server

Verdict
CAUTION
Grade
B
Trust score
89 /100
Exposed tools
1 1r · 0w · 0d
Transport
stdio
License
MIT
Stars
46
01

Overview

From the repository's own README, as read at the audited commit. Badges and raw HTML are left out.

search pubmed via MCP

Components

Resources

The server implements a simple note storage system with:

  • Custom note:// URI scheme for accessing individual notes
  • Each note resource has a name, description and text/plain mimetype

Prompts

The server provides a single prompt:

  • summarize-notes: Creates summaries of all stored notes
  • Optional "style" argument to control detail level (brief/detailed)
  • Generates prompt combining all current notes with style preference

Tools

The server implements one tool:

  • add-note: Adds a new note to the server
  • Takes "name" and "content" as required string arguments
  • Updates server state and notifies clients of resource changes

Configuration

[TODO: Add configuration details specific to your implementation]

Quickstart

Install

Claude Desktop

On MacOS: ~/Library/Application\ Support/Claude/claude_desktop_config.json On Windows: %APPDATA%/Claude/claude_desktop_config.json

Development/Unpublished Servers Configuration

"mcpServers": {
"pubmed_search": {
"command": "uv",
"args": [
"--directory",
"/Users/nofuture/Documents/GitHub/pubmed_search",
"run",
"pubmed_search"
]
}
}

Published Servers Configuration

"mcpServers": {
"pubmed_search": {
"command": "uvx",
"args": [
"pubmed_search"
]
}
}

Development

Building and Publishing

To prepare the package for distribution:

  1. Sync dependencies and update lockfile:
uv sync
  1. Build package distributions:
uv build

This will create source and wheel distributions in the dist/ directory.

  1. Publish to PyPI:
uv publish

Note: You'll need to set PyPI credentials via environment variables or command flags:

  • Token: --token or UV_PUBLISH_TOKEN
  • Or username/password
Read from source at commit 491381cd6506OBSERVED · 2026-10-08
02

Connect

Built from this server's own package name, version and transport as found in its source — not copied from anyone's documentation, so it cannot drift against a page we do not control.

claude-code
claude mcp add pubmed-search -- uvx pubmed-search
claude-desktop
{
  "mcpServers": {
    "pubmed-search": {
      "command": "uvx",
      "args": [
        "pubmed-search"
      ]
    }
  }
}
03

Exposed tools (1)

1 read · 0 write · 0 destructive.

ToolRiskDescription
pubmed_searchreadSearch PubMed medical literature database
04

Trust audit

CAUTIONgrade B · trust 89/100 Install with care. The audit found things worth knowing before you trust its output.

LayerWhat it checksResult
L0Provenance & inventoryWARN
L1Static analysis of the codePASS
L2Instruction surface (what it tells the agent)PASS
L3Class-specific surfacePASS
L4Behavioural (sandbox)SKIPPED

What the source does

Filesystem
none-observed
Network
none-observed
Shell
none-observed
Dependencies
pinned
Secrets in source
none-found

Findings (5)

MEDIUMInventory / provenance · inv.binary · CWE-1104
.DS_Store
.DS_Store
Why it matters. a compiled or binary member cannot be reviewed from source
Fix. ship source, or explain the binary in the README
MEDIUMInventory / provenance · inv.binary · CWE-1104
src/.DS_Store
.DS_Store
Why it matters. a compiled or binary member cannot be reviewed from source
Fix. ship source, or explain the binary in the README
LOWInventory / provenance · inv.hidden_file · CWE-1104
.DS_Store
.DS_Store
Why it matters. hidden member outside the usual dotfiles
Fix. review its purpose
LOWInventory / provenance · inv.hidden_file · CWE-1104
src/.DS_Store
.DS_Store
Why it matters. hidden member outside the usual dotfiles
Fix. review its purpose
INFOInventory / provenance · inv.oversize · CWE-1104
pubmed_search.log
pubmed_search.log
Why it matters. 7271667 bytes not read

Gates applied: no_behavioural_pass.

Audited 2026-10-08 · audit v0.4.1 · source sha 491381cd6506full audit observations/trust-audit/mcp-server/wavelovey__pubmed-search.json · Report an issue / request a re-scan
05

Audit history

Every audit this server has had. A grade with a past is a grade somebody is still checking.

DateSourceVerdictGradeScoreChange
2026-10-08491381cd6506CAUTIONB89first audit
06

Questions

What is the Pubmed Search MCP server?

MCP PubMed Search Server

What tools does Pubmed Search expose?

1 in total: 1 read-only, 0 that write, and 0 that can delete or overwrite. Every one is listed on this page with its risk.

Is Pubmed Search safe to connect to an agent?

With care. The audit graded it B (89/100) and found 5 things worth knowing before you trust this server, listed below with the exact line each was found on.

What credentials does Pubmed Search need?

No credential environment variables were found in its source, so it appears to need none.

How does Pubmed Search run?

It speaks stdio, so it runs as a local process your client starts. It is published on PyPI as pubmed-search.

How current is this page?

The grade is for one exact copy of the source (491381cd6506), read on 2026-10-08. The repository is watched and re-audited when it changes.

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