/bcbio_docker

Automated Docker builds for bcbio

Primary LanguageDockerfileMIT LicenseMIT

bcbio automated Docker builds

Build Status

Uses GitHub actions and Quay to build Docker images for bcbio. Automates and splits up the monolithic bcbio/bcbio Docker container.

Docker images

This builds a variety of Docker images, supporting runs using bcbio generated CWL:

  • bcbio-base -- A base version of bcbio containing the code and no tools. This is the building block for application specific containers.
  • bcbio-vc -- bcbio with tools for variant calling: alignment; quality control; SNP, indel and structural variant callers
  • bcbio-rnaseq -- bcbio with tools for RNA-seq analysis: trimming, alignment quantitation and quality control.

The YAML files defining tools installed in the target Docker images are in packages. We autogenerate these from tool requirements in CWL specification files.