CyVerse Ansible Nextflow

This role will install nextflow and if desired Dolphinnext in a container. If Dolphinnext is installed connect via http://localhost:8080/dolphinnext

Requirements

This role only assumes that you are on a recent version of Ubuntu, and have k3s installed. It is ment to be installed on the k3s master.

Role Variables

The following table lists optional ansible variables along with the default values if not defined.

Variable Name	Default value if not defined	Description
INSTALL_DOLPHINNEXT	false	installs dolphinnext in a container
PV_SPACE	1Gi	the size of the PersistentVolume used by nextflow

Example Playbook

This is a sample playbook:

- hosts: k3s_cluster
  become: true
  roles:
    - ansible-nextflow
  vars:
    INSTALL_DOLPHINNEXT: true

Starting Dolphinnext

1. Running the container:

docker run -m 10G -p 8080:80 -v /root/dolphinnext-studio/data:/export -ti ummsbiocore/dolphinnext-docker /bin/bash

2. After you start the container, you need to start the mysql and apache server using the command below:

startup

3. Verify that dolphinnext and mysql folders located inside of the /export folder:

ls /export

4. Now, you can open your browser to access dolphinnext using the url below:

http://localhost:8080/dolphinnext

Note: in dolphinnext container the config is at dolphinnext/config/.sec

Author Information

Ryan Schneider ([email protected])