custom_dockerfiles

Collecting random docker files I've used/created

• Basic file: FROM (image), ARG (custom arguments), RUN (install packages)
• ARG DEBIAN_FRONTEND=noninteractive is useful for ignoring additional (non-breaking) prompts from the installation of packages
• && rm -rf /var/lib/apt/lists/* is useful for cleaning up, making the image as small as possible
• Google useradd to remember how to add non-root users to images, and then use USER <new user> to use it
• \ && for chaining commands across lines
• To pull an image from the repo: docker pull [OPTIONS] NAME[: TAG|@DIGEST]
• To run an image, adding arguments to run over the top: docker run [OPTIONS] IMAGE [COMMAND] [ARG...]
• List all containers: docker ps [OPTIONS] (-all)
• stop/kill an image: docker stop/kill [OPTIONS] CONTAINER [CONTAINER...]
• Remove docker options: -f forces it, -v also removes volumes
• Starting an image: -a to add a stdout, -i for interactive mode.

Other bits whilst building:

• Installing R packages using apt-get install <package> is much quicker
• Add --platform="linux/amd64" to the cli when building on a mac

The Rocker Project - Docker Containers for the R Environment

Dockerfiler - create docker file from R

r2u is amazing as it allows all CRAN and many bioconductor packages to be installed via apt