Benchling Integration
Benchling Python SDK and REST API integration for registry entities, inventory, ELN...
Install
npx skills add K-Dense-AI/scientific-agent-skills --skill benchling-integration -g -a claude-code -y- Repository
- K-Dense-AI/scientific-agent-skills55.7k
- Category
- Engineering
- Updated
- 9d ago
- License
- MIT
- Context cost
- Mediumabout 1,763 tokens
- Runs scripts
- No, instructions only
What it does
Benchling Python SDK and REST API integration for registry entities, inventory, ELN entries, workflows, Benchling Apps, and Data Warehouse queries. Use when automating lab data with benchling-sdk or the v2 API.
Benchling Integration
When to use
Use this skill for Benchling registry entities, sequence imports, inventory, ELN entries, workflow tasks, apps, event-driven integrations, and warehouse analytics.
Reviewed 2026-09-30: examples target the released benchling-sdk 1.25.0 and its stable v2 API models. The current authentication guide recommends V3 for new development, while the V3 guide still describes endpoint-specific early access. Confirm your tenant's V3 availability and stability before migrating; these v2 SDK examples must not be mechanically rewritten to V3.
SDK imports, model serialization, and request construction were checked locally against 1.25.0. Tenant-dependent examples are illustrative: no authenticated requests, mutations, AWS deployment, or warehouse connection were run.
Workflow
- Identify the tenant, API version, identity, and permissions. Use OAuth app credentials for background integrations; use delegated authorization when acting as an individual user. See authentication.
- Read the relevant schema and resolve actual folder, registry, status, and dropdown IDs. Preserve sequence alphabet/topology and sample units. A valid Python model does not establish biological correctness or satisfaction of a tenant's required fields.
- Read a small filtered page before writing. Use typed SDK methods and check their actual parameter names; not all services share the same CRUD naming convention.
- Construct and serialize a representative payload. For imports, retain external IDs and returned Benchling IDs so a retry can reconcile a partial run without duplicates.
- Perform the requested operation and read back the result. Check terminal async status;
completed polling can still mean
FAILED.
Setup and a read-only query
uv pip install "benchling-sdk==1.25.0"
