ols4 vs filesystem
Side-by-side comparison to help you pick between these two MCP servers.
ols4 by EBISPOT | filesystem by modelcontextprotocol | |
|---|---|---|
| Stars | ★ 89 | ★ 85,748 |
| 30d uses | — | — |
| Score | 47 | 77 |
| Official | — | ✓ |
| Categories | Knowledge GraphDeveloper ToolsAI / LLM Tools | File SystemDeveloper ToolsProductivity |
| Language | Java | TypeScript |
| Last commit | this month | this month |
ols4 · Summary
EMBL-EBI's Ontology Lookup Service provides an MCP server for biomedical ontologies via REST API.
filesystem · Summary
A feature-rich MCP server for filesystem operations with dynamic directory access control.
ols4 · Use cases
- Biomedical researchers querying ontology terms and relationships
- Bioinformatics tool developers integrating ontology data into applications
- Data standardization projects enforcing controlled vocabularies
filesystem · Use cases
- Enable AI models to read and write project files during development
- Allow Claude or other MCP clients to browse and analyze codebases
- Provide secure sandboxed access to specific directories for content generation
ols4 · Install
Installation
- **Docker Compose (Recommended)**:
``bash HOST_UID=$(id -u) HOST_GID=$(id -g) docker compose up ``
- **Kubernetes with Helm**:
``bash export KUBECONFIG=<K8S_CONFIG> helm install ols4 <OLS4_DIR>/k8chart/ols4 --set imageTag=dev ``
- **Claude Desktop Configuration**:
Add to your Claude Desktop config.json: ``json { "mcpServers": { "ols": { "command": "curl", "args": ["-s", "https://www.ebi.ac.uk/ols4/api/mcp"] } } } ``
filesystem · Install
Installation
Using NPX
{
"mcpServers": {
"filesystem": {
"command": "npx",
"args": [
"-y",
"@modelcontextprotocol/server-filesystem",
"/path/to/allowed/directory"
]
}
}
}Using Docker
{
"mcpServers": {
"filesystem": {
"command": "docker",
"args": [
"run",
"-i",
"--rm",
"--mount", "type=bind,src=/path/to/allowed/dir,dst=/projects/allowed/dir",
"mcp/filesystem",
"/projects"
]
}
}
}VS Code Extension
Click the installation buttons in the README to install directly in VS Code.