Configuration
The following steps are needed to use the local machine as execution machine for the Workflows.

Install Kitematic from https://kitematic.com/download/. If using Linux, install docker manually.
Install the Nextflow software from http://www.nextflow.io , version 0.17.0+ in a selected folder. This creates a file called nextflow in the folder to use in the next step.
Configure Path Variable in MPS:

Define the following Path Variable (menu MPS>Preferences…>Build, Execution, Deployment>Path Variables):

  • Name:NEXTFLOW_PATH
    Value: the full path of the folder containing the nextflow executable.

Add NEXTFLOW_PATH var

Define the following Path Variable (menu MPS>Preferences..>Build, Execution, Deployment>Path Variables):

  • Name:org.campagnelab.workflow.work_dir
    Value: an arbitrary folder under /Users in Mac OS X or C:\Users in Windows used as workflow working directory.

Add workflow_dir var