artbio / metavisitor

This is the repository for the automated deployment of a Metavisitor Galaxy server.

The Metavisitor Documentation is available on https://artbio.github.io/metavisitor/

The viral Vir2 database used in Metavisitor is available for download in figshare.

Quick Start - Deploy Galaxy Metavisitor instance on a target Ubuntu machine

Tested on Ubuntu 16.04

• You need root access (be sudoer)

• You need git install (sudo apt install git -y)

• Clone locally this repository

git clone https://github.com/ARTbio/metavisitor.git

• Navigate to metavisitor directory

cd metavisitor

Deploy Metavisitor with ansible:

sh local_metavisitor_ansible_build.sh

Deploy Metavisitor with docker

sh local_metavisitor_docker_build.sh

Docker image artbio/metavisitor-2 available at https://cloud.docker.com

Run example:

docker run -d -p 80:80 -p 21:21 -p 8800:8800 \
             --privileged=true \
             -e GALAXY_CONFIG_ALLOW_USER_DATASET_PURGE=True \
             -e GALAXY_CONFIG_ALLOW_LIBRARY_PATH_PASTE=True \
             -e GALAXY_CONFIG_ENABLE_USER_DELETION=True \
             -e GALAXY_CONFIG_ENABLE_BETA_WORKFLOW_MODULES=True \
             -e NGINX_GALAXY_LOCATION=/subdir \
             -v /tmp/:/tmp/ \
             -v /export:/export \
             artbio/metavisitor-2