infotechsoft/immport-galaxy repository overview

⁠docker-immportgalaxy

Version: 16.07-alpha (based on ImmPort-Galaxy's customization of Galaxy 16.07)

Note: This is an Alpha release intended to test configuration and deployment of cusom immunogenomics tools to the ImmPort-Galaxy platform. It will be updated to a more stable release to include a Postgres database and additional file management services, potentially with a connection to remote execution in AWS.

⁠ImmPort-Galaxy Deployment on Ubuntu

Built against the master branch of the ImmPortDB/ImmPort-Galaxy⁠ project on GitHub on an updated Ubuntu 16.04 LTS release.

⁠Usage

The docker container runs the Galaxy server under a galaxy user account in \home\docker\.

# get the latest ImmPort-Galaxy build
> docker pull infotechsoft/immportgalaxy:latest

# start Galaxy server on port 8080
> docker run -d -p 8080:8080 --name immport-galaxy infotechsoft/immportgalaxy:latest

 # follow the Galaxy server startup/logs
 > docker logs -f immport-galaxy

# interactive (shell)
docker run -it -p 8080:8080 --name immport-galaxy infotechsoft/immportgalaxy:latest /bin/bash
 # start the Galaxy server
 > sh ./run.sh
 
# cleanup (remove the immport-galaxy container)
docker rm immport-galaxy

⁠Building

Note: Building from the Dockerfile may take approximately an hour and involve significant Internet usage as the ImmPort-Galaxy prerequites are downloaded, built, installed, and updated. It is recommended to run using the Docker image on Docker Hub.

# build an image, tagging it "immport-galaxy"
> docker build . -t immport-galaxy

⁠Related Projects

⁠Build Details

• Ubuntu Version: 16.04 LTS
• ImmPort-Galaxy Version: master https://github.com/ImmPortDB/immport-galaxy⁠
• Galaxy Version: 16.07 (ImmPort-Galaxy customization)
• Python Version: 2.7.14
• R Version: 3.4.3 (from cran.rstudio.com⁠)
• Bioconductor Version: 3.6 (from bioconductor.org⁠)
• Anaconda Version: 5.0.1 (from repo.continuum.io⁠)

⁠Maintainer