This document explains how to configure a pipeline across two machines, where machine A (running LabKey Server) submits pipeline jobs to machine B (a Remote Pipeline Server).

Pipeline Root

First decide the location of the pipeline root (= the source location for job files to be submitted to the Remote Pipeline Server).

For example, assume that the pipeline root is on a Linux machine running LabKey Server:


Shared File System

Next, share out this pipeline root directory so that the machine running the Remote Pipeline Server can map to it.

Network Share


Share Name


Assuming Windows mounts this directory, it will map it to a local drive, for example T:.

Example Mapping

LabKey Server (Linux)


Remote Pipeline Server (Windows)



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