This repository contains Dockerfiles for different Docker containers of interest for Bioconductor users. Additional information about available containers, installation and modification can be found on the Bioconductor Docker Page or Docker installation.

See also Bioconductor Docker Page.

Docker Container	Docker Hub Latest Version	Image Size
release_base2 (GitHub) (DockerHub)
release_core2 (GitHub) (DockerHub)
devel_base2 (GitHub) (DockerHub)
devel_core2 (GitHub) (DockerHub)

Maintained as part of the “PhenoMeNal, funded by Horizon2020 grant 654241”

Docker Container	Docker Hub Latest Version	Image Size
release_protmetcore2 (GitHub) (DockerHub)
release_metabolomics2 (GitHub) (DockerHub)
devel_protmetcore2 (GitHub) (DockerHub)
devel_metabolomics2 (GitHub) (DockerHub)

Docker Container	Docker Hub Latest Version	Image Size
release_mscore2 (GitHub) (DockerHub)
release_protcore2 (GitHub) (DockerHub)
release_proteomics2 (GitHub) (DockerHub)
devel_mscore2 (GitHub) (DockerHub)
devel_protcore2 (GitHub) (DockerHub)
devel_proteomics2 (GitHub) (DockerHub)

A well organized guide to popular docker commands can be found here. For convenience, below are some commands to get you started. Note: You may need to add sudo before each command

docker images

docker ps

docker ps -a

docker inspect --format '{{ .NetworkSettings.IPAddress }}' <name>

docker pull <name>

docker run -itd <name>

docker stop <name>

docker start <name>

docker rm <name>

docker exec -it <name> /bin/bash
docker attach <name>

The BioC Dockerfiles are not directly edited. Instead, for each biocView, there is a common Dockerfile.in, from which two output files for release and devel files are generated by running the rake command. All the creation is controlled by the Rakefile, which will also take care if any of the dependencies (i.e. the *.in files) have changed.

E.g. the Dockerfile for the BioC development branch for core packages is created from src/core/Dockerfile.in and placed into out/devel_core/Dockerfile.