JavaJar step

Cloudgene supports the execution of jar files (written in Java).

Parameters

Parameter Required Description
type yes Type has to be java
jar yes The filename of the jar (relativ to cloudgene.yaml file)
params no The paramters that you want to use in your jar
stdout no Use stdout as step's output (default: false)

Examples

Execute Jar Archive

The following example illustrates how to execute the default main-class of jar archive:

name: java example
version: 1.0
workflow:
  steps:
    - name: Execute jar archive
      type: java
      jar: my-jar-file.jar
      params: --param1 $file1
  inputs:
    - id: file1
      description: Input File
      type: local_file