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Benchling_Write

Node​

Node Description​

Writes to Benchling via API

Pulls table from data lake based on SQL query provided, applies user-defined logic, and uploads processed result to Benchling. This node is used in conjunction with the BenchlingTag node; this node writes to the location specified by the Benchling run tag.

Notes​

Usage requires configuration of a Benchling application in the relevant Benchling tenant.

Prior to usage, the secrets below must be configured in your Ganymede environment. More information on acquiring these credentials can be found here.

  • benchling_url: URL for Benchling tenant; has form https://<tenant>.benchling.com
  • benchling_app_client_id: Client_ID; has form xxxxxxxx-xxxx-xxxx-xxxx-xxxxxxxxxxxx
  • benchling_client_secret: Client_Secret; has form cs_xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx

Secrets can be configured by clicking on your username in the upper-right hand of the Ganymede application, then selecting Environment Settings and navigating to the Secrets tab. If you need assistance, please don't hesitate to reach out to Ganymede.

User-Defined Python​

Processes input DataFrame for upload to Benchling

Parameters​

  • df : pd.DataFrame
    • Tabular result of user-defined SQL query
  • benchling_context : BenchlingContext
    • Benchling context variable, which stores Benchling connection information
  • ganymede_context : GanymedeContext
    • Ganymede context variable, which stores flow run metadata

Returns​

NodeReturn Object containing data to store in data lake and/or blob storage