README.md

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Roslin-targeted-variants

Table of Contents:

1. From Build to Deploy
2. Adding New Tool to Pipeline
3. Running Pipeline
   1. Prerequisites
   2. Setting Up Workspace

From Build to Deploy

Step 1

• Set Up Virtual Machine

Step 2 and 3

• Build Everything

Step 4

• Create Setup Package

Step 5

• Deploy

Adding New Tool to Pipeline

• Build Container Image
• Build CWL Wrapper

Running Pipeline

Prerequisites

To run the pipeline you need:

• Python 2.7.x
• Node.js 6.1.0
• Singularity 2.2.1
• cwltoil
• cmo

Luna already fulfills these requirements.

Setting Up Workspace

Please refer to this document.