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biolit

L0· runs locally

LLM-assisted biomedical literature screening and extraction for PubMed, GEO, and preprints.

v0.1.25 · active · repository · descriptor JSON · versions

Runs on your machine: something must execute the package.Only local packages are published (npm, PyPI, OCI, …). The registry never executes them, so tools are unknown until you run it.
Quality–not scored
Trust76of 100
Packages1
Tools seen0

Connect

8 clients · secrets stay placeholders
{
  "mcpServers": {
    "biolit": {
      "command": "uvx",
      "args": [
        "biolit==0.1.25"
      ],
      "env": {
        "ANTHROPIC_API_KEY": "${ANTHROPIC_API_KEY}",
        "OPENAI_API_KEY": "${OPENAI_API_KEY}",
        "SEMANTIC_SCHOLAR_API_KEY": "${SEMANTIC_SCHOLAR_API_KEY}"
      }
    }
  }
}
claude mcp add biolit -e "ANTHROPIC_API_KEY=${ANTHROPIC_API_KEY}" -e "OPENAI_API_KEY=${OPENAI_API_KEY}" -e "SEMANTIC_SCHOLAR_API_KEY=${SEMANTIC_SCHOLAR_API_KEY}" -- uvx biolit==0.1.25
[mcp_servers.biolit]
command = "uvx"
args = ["biolit==0.1.25"]
env = { "ANTHROPIC_API_KEY" = "${ANTHROPIC_API_KEY}", "OPENAI_API_KEY" = "${OPENAI_API_KEY}", "SEMANTIC_SCHOLAR_API_KEY" = "${SEMANTIC_SCHOLAR_API_KEY}" }

{
  "$schema": "https://opencode.ai/config.json",
  "mcp": {
    "biolit": {
      "type": "local",
      "command": [
        "uvx",
        "biolit==0.1.25"
      ],
      "enabled": true,
      "environment": {
        "ANTHROPIC_API_KEY": "{env:ANTHROPIC_API_KEY}",
        "OPENAI_API_KEY": "{env:OPENAI_API_KEY}",
        "SEMANTIC_SCHOLAR_API_KEY": "{env:SEMANTIC_SCHOLAR_API_KEY}"
      }
    }
  }
}
{
  "mcpServers": {
    "biolit": {
      "command": "uvx",
      "args": [
        "biolit==0.1.25"
      ],
      "env": {
        "ANTHROPIC_API_KEY": "${ANTHROPIC_API_KEY}",
        "OPENAI_API_KEY": "${OPENAI_API_KEY}",
        "SEMANTIC_SCHOLAR_API_KEY": "${SEMANTIC_SCHOLAR_API_KEY}"
      }
    }
  },
  "deeplink": "cursor://anysphere.cursor-deeplink/mcp/install?name=biolit&config=eyJjb21tYW5kIjoidXZ4IiwiYXJncyI6WyJiaW9saXQ9PTAuMS4yNSJdLCJlbnYiOnsiQU5USFJPUElDX0FQSV9LRVkiOiIke0FOVEhST1BJQ19BUElfS0VZfSIsIk9QRU5BSV9BUElfS0VZIjoiJHtPUEVOQUlfQVBJX0tFWX0iLCJTRU1BTlRJQ19TQ0hPTEFSX0FQSV9LRVkiOiIke1NFTUFOVElDX1NDSE9MQVJfQVBJX0tFWX0ifX0%3D"
}
{
  "servers": {
    "biolit": {
      "type": "stdio",
      "command": "uvx",
      "args": [
        "biolit==0.1.25"
      ],
      "env": {
        "ANTHROPIC_API_KEY": "${ANTHROPIC_API_KEY}",
        "OPENAI_API_KEY": "${OPENAI_API_KEY}",
        "SEMANTIC_SCHOLAR_API_KEY": "${SEMANTIC_SCHOLAR_API_KEY}"
      }
    }
  }
}
{
  "mcpServers": {
    "biolit": {
      "command": "uvx",
      "args": [
        "biolit==0.1.25"
      ],
      "env": {
        "ANTHROPIC_API_KEY": "${ANTHROPIC_API_KEY}",
        "OPENAI_API_KEY": "${OPENAI_API_KEY}",
        "SEMANTIC_SCHOLAR_API_KEY": "${SEMANTIC_SCHOLAR_API_KEY}"
      }
    }
  }
}
extensions:
  "biolit":
    enabled: true
    name: "biolit"
    type: stdio
    cmd: "uvx"
    args:
      - "biolit==0.1.25"
    envs:
      "ANTHROPIC_API_KEY": "${ANTHROPIC_API_KEY}"
      "OPENAI_API_KEY": "${OPENAI_API_KEY}"
      "SEMANTIC_SCHOLAR_API_KEY": "${SEMANTIC_SCHOLAR_API_KEY}"
    timeout: 300

Placeholders to fill from your own secret store: ${ANTHROPIC_API_KEY}, ${OPENAI_API_KEY}, ${SEMANTIC_SCHOLAR_API_KEY}. The registry never accepts secret values.

This is a local package: the command runs on your machine.

Quality – / 100not scored

Not scored: fewer than three checks apply, usually because no remote answered a credential-free probe or the server is a local package.

protocoln/a · weight 25
  • n/a
    protocol.modern, protocol.stateless, protocol.transport, protocol.list_ttlno remote answered a protocol handshake (not probed yet, unreachable, or local-only)
authorizationn/a · weight 15
  • n/a
    auth.prm, auth.as_metadata, auth.cimdno remote uses OAuth
  • n/a
    auth.secret_in_urlno templated URL
tool hygienen/a · weight 30
  • n/a
    tools.descriptions, tools.description_length, tools.schemas, tools.annotations, tools.directory_hints, tools.token_cost, tools.api_dumptool list unknown (behind auth, not probed, or empty)
stabilityn/a · weight 15
  • n/a
    stability.changes, stability.rug_pulltool list unknown
dependencies100 · weight 15
  • pass
    deps.known_vulnsno known advisory in 48 resolved packages
  • pass
    deps.mcp_sdk_versionmcp 2.2.0, no known advisory
  • pass
    deps.resolvable[email protected] resolved: 48 packages

Tool list unknown · checked 2026-10-19 13:37 UTC

Tool changes

No tool definition changes recorded. A server's first observation is its baseline; later probes record what changes.

Checks run on what our credential-free, read-only probes observe; tools are never called and no code audit is performed. How it is computed.

Trust 76 / 100

provenance80
livenessn/a
freshness45
hygiene100

+repository +namespace-matches-repo ~liveness-unmeasured -stale-201d

Derived from observable signals (official registry feed and our own credential-free probes); no code audit performed. How it is computed.

Dependencies

[email protected] PyPI47 dependencies, resolved · MCP SDK mcp 2.2.0 · advisories checked 2026-10-19

No known advisory affects this dependency graph.

Dependency graphs from deps.dev; advisories from OSV.dev, including the GitHub Advisory Database and the PyPI Advisory Database; all CC BY 4.0. The graph is what a clean install of this version resolves today; nothing was installed or run. How it is checked.

Endpoints

packageregistryversionruntimesecrets
biolitpypi0.1.25–ANTHROPIC_API_KEY, OPENAI_API_KEY, SEMANTIC_SCHOLAR_API_KEY

Tools (0)

No tools observed. Local packages are never executed by the registry.

Schemas: list_tools.

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Official server.json
{
  "name": "io.github.rachadele/biolit",
  "$schema": "https://static.modelcontextprotocol.io/schemas/2025-12-11/server.schema.json",
  "version": "0.1.25",
  "packages": [
    {
      "version": "0.1.25",
      "transport": {
        "type": "stdio"
      },
      "identifier": "biolit",
      "registryType": "pypi",
      "environmentVariables": [
        {
          "name": "ANTHROPIC_API_KEY",
          "format": "string",
          "isSecret": true,
          "description": "Anthropic API key (required when using the default Anthropic provider)"
        },
        {
          "name": "OPENAI_API_KEY",
          "format": "string",
          "isSecret": true,
          "description": "OpenAI API key (required when using LLM_PROVIDER=openai)"
        },
        {
          "name": "LLM_PROVIDER",
          "format": "string",
          "description": "LLM provider: anthropic (default), openai, or ollama"
        },
        {
          "name": "LLM_MODEL",
          "format": "string",
          "description": "Model name override (e.g. claude-sonnet-4-6, gpt-4o)"
        },
        {
          "name": "SEMANTIC_SCHOLAR_API_KEY",
          "format": "string",
          "isSecret": true,
          "description": "Semantic Scholar API key for higher rate limits on citation lookup (optional)"
        },
        {
          "name": "UNPAYWALL_EMAIL",
          "format": "string",
          "description": "Email address for Unpaywall API access to improve PDF retrieval (optional)"
        }
      ]
    }
  ],
  "repository": {
    "url": "https://github.com/rachadele/biolit",
    "source": "github"
  },
  "description": "LLM-assisted biomedical literature screening and extraction for PubMed, GEO, and preprints."
}