Containers cheat sheet

action	docker	singularity
pull existing image from docker hub	docker pull ubuntu:18.04	sudo singularity build ubuntu_18.04.simg docker://ubuntu:18.04
login to container shell	docker run -it ubuntu:18.04 bash	singularity shell ubuntu_18.04.simg
update image NOT using a file	Login to container shell: docker run -it ubuntu:18.04 bash apt update apt install vim exit Commit the changes while the container is down: Locate Container ID: docker ps -a Commit the changes to a new image tag: docker commit 19b0acbfef1b ubuntu:18.04_tau	Create writable image: sudo singularity build --sandbox ubuntu_18.04_tau.simg docker://ubuntu:18.04 Login to image shell in a writable mode: sudo singularity shell --writable ubuntu_18.04_tau.simg apt update apt install vim exit
create new image	1. Edit Dockerfile (file name must be Dockerfile): #Download base image FROM ubuntu:18.04 # Update vim RUN apt update && apt install -y vim # Define environment variable ENV TEAM HPC 2. Build image: docker build -t ubuntu:18.04_tau2 .	1. Edit Singularity file (file name can be anything): #Download base image Bootstrap: docker FROM: ubuntu:18.04 # Update vim %post apt-get update apt-get install -y vim %environment TEAM=HPC export TEAM 2. Build image: sudo singularity build ubuntu_18.04_tau2.simg Singfile
run as a daemon	Run image as daemon using infinite sleep: docker run -d ubuntu:18.04_tau2 sleep 999999999
list running containers	docker ps
list running and stopped containers	docker ps -a
list local images	docker images	ls
Start a downed container (note it must have already been executed at least once)	docker start c4f7efb53d1a
Stop a container	docker stop c4f7efb53d1a
Delete a container	docker rm 3271c613e00a
Delete an image	docker rmi 9f38484d220f	rm ubuntu_18.04_tau2.simg
view container logs	docker logs f28eb1af539d
view disk usage	docker system df
view full details about the docker service	docker info
view full details about a container	docker inspect containerid
start shell inside daemonized container	docker exec -it f28eb1af539d bash To exit: <CTL>+p, <CTL>+q (typing 'exit' will kill the container)
Run program from within the image without parameters	docker run -it ubuntu:18.04_tau4 python	Add to the Singularity file: %apprun python exec python ""${@}"" Build the singularity image: sudo singularity build ubuntu_18.04_tau2.simg Singfile Run the program: singularity run --app python ubuntu_18.04_tau4.simg
Run program from within the image with parameters	docker run -it ubuntu:18.04_tau4 python -c "print('hello world')"	Add to the Singularity file: %apprun python exec python "${@}" Build the singularity image: sudo singularity build ubuntu_18.04_tau2.simg Singfile Run the program: singularity run --app python ubuntu_18.04_tau4.simg -c "print('hello world')"
Add help to image		Add to the Singularity file: %help Python version 2.7.15rc1 Usage ===== View help: $ singularity help ubuntu_18.04_tau4.simg Run Python from the container: $ singularity run --app python ubuntu_18.04_tau4.simg Build the singularity image: sudo singularity build ubuntu_18.04_tau2.simg Singfile View the help: singularity help ubuntu_18.04_tau4.simg