Refget Loader

Load reference sequences to Public Cloud Storage from a variety of data sources

Overview

Supported Cloud Environments

• AWS S3

Supported Data Sources

• ENA Assemblies

Getting Started

Prerequisites

• Install the AWS Command Line Interface, and configure the CLI to run with an IAM user/profile that has write access to the S3 bucket of interest
• Install the ena-refget-processor using the instructions provided, the scheduler will make use of its load_expanded_con.pl script

Installation

Clone repo and install locally

git clone https://github.com/ga4gh/ena-refget-scheduler.git
cd ena-refget-scheduler
python setup.py install

Confirm the scheduler has been installed by issuing:

ena-refget-scheduler

Usage

View / Modify Settings

View / Modify Upload Checkpoint

Schedule Upload Jobs