metagenomic analysis server site code
Perl JavaScript Python R CSS PLpgSQL Other
Latest commit 236f3ec Apr 26, 2017 @paczian paczian committed on GitHub Merge pull request #1193 from paczian/develop
ebi patch & minor bugfix

README.md

MG-RAST source code

This is the repository for the MG-RAST metagenome analysis system. Take a look at MG-RAST.

WARNING

Don't try this at home.

LICENSE

MG-RAST is made available under a BSD type LICENSE, see the LICENSE file for details.

Please note: The MG-RAST team is dedicated to supporting the

server at http://metagenomics.anl.gov, we are not resourced to help with local installations. So as much as we'd like to we can't help with local installations of this software.

REQUIREMENTS

Hardware

MG-RAST is a pipeline, an archive, a complex web interface and several other tools. The entire systems was designed for a Linux/Unix system. We run it on a dedicated small cluster for the server infrastructure and heavily utilize CLOUD computing resources.

Systems-Software

  1. MySQL
  2. PostGres
  3. Perl
  4. R
  5. Apache
  6. NGINX

For the bioinformatics software and databases used in MG-RAST please see the tools and data entry in our blog

INSTRUCTIONS

type make

web-v3 docker

export TAG=`date +"%Y%m%d.%H%M"`
git clone -b master https://github.com/MG-RAST/MG-RAST.git
cd MG-RAST
docker build --force-rm --no-cache --rm -t mgrast/v3-web:${TAG} -f ./Dockerfile_v3-web .
skycore push mgrast/v3-web:${TAG}

API server

export TAG=`date +"%Y%m%d.%H%M"`
git clone -b api https://github.com/MG-RAST/MG-RAST.git
cd MG-RAST
docker pull mgrast/api-base
docker build --force-rm --no-cache --rm -t mgrast/api:${TAG} .
skycore push mgrast/api:${TAG}