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2023-05-14T11:38:22Z

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hpcwiki>Dvory at 07:28, 23 February 2021

2021-02-23T07:28:09Z

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{| class="wikitable"
! align="center" style="background:#f0f0f0;"| '''action'''
! align="center" style="background:#f0f0f0;"| '''docker'''
! align="center" style="background:#f0f0f0;"| '''singularity'''
|- align="center "
| pull existing image from docker hub || <pre>docker pull ubuntu:18.04</pre> || <pre>sudo singularity build ubuntu_18.04.simg docker://ubuntu:18.04</pre>
|- align="center"
| login to container shell || <pre>docker run -it ubuntu:18.04 bash</pre> || <pre>singularity shell ubuntu_18.04.simg</pre>
|- align="center"
| update image NOT using a file || Login to container shell:
<pre>docker run -it ubuntu:18.04 bash
apt update
apt install vim
exit</pre>
Commit the changes while the container is down:
Locate Container ID: <pre>docker ps -a</pre>
Commit the changes to a new image tag: <pre>docker commit 19b0acbfef1b ubuntu:18.04_tau</pre>
||
Create writable image:<pre>sudo singularity build --sandbox ubuntu_18.04_tau.simg docker://ubuntu:18.04</pre>
Login to image shell in a writable mode: <pre>sudo singularity shell --writable ubuntu_18.04_tau.simg
apt update
apt install vim
exit</pre>
|- align="center"
| create new image || 1. Edit Dockerfile (file name must be Dockerfile):
<pre>#Download base image
FROM ubuntu:18.04
# Update vim
RUN apt update && apt install -y vim
# Define environment variable
ENV TEAM HPC
</pre>
2. Build image:
<pre> docker build -t ubuntu:18.04_tau2 .</pre>
||
1. Edit Singularity file (file name can be anything):
<pre>
#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
</pre>
2. Build image:
<pre>sudo singularity build ubuntu_18.04_tau2.simg Singfile</pre>
|- align="center"
| run as a daemon || Run image as daemon using infinite sleep:
<pre>docker run -d ubuntu:18.04_tau2 sleep 999999999</pre>
||
|- align="center"
| list running containers || <pre>docker ps</pre>
||
|- align="center"
| list running and stopped containers || <pre>docker ps -a</pre>
||
|- align="center"
| list local images || <pre>docker images</pre>
|| <pre>ls</pre>
|- align="center"
| Start a downed container (note it must have already been executed at least once) || <pre>docker start c4f7efb53d1a</pre>
||
|- align="center"
| Stop a container || <pre>docker stop c4f7efb53d1a</pre>
||
|- align="center"
| Delete a container || <pre>docker rm 3271c613e00a</pre>
||
|- align="center"
| Delete an image || <pre>docker rmi 9f38484d220f</pre>
|| <pre>rm ubuntu_18.04_tau2.simg</pre>
|- align="center"
| view container logs || <pre>docker logs f28eb1af539d</pre>
||
|- align="center"
| view disk usage || <pre>docker system df</pre>
||
|- align="center"
| view full details about the docker service || <pre>docker info</pre>
||
|- align="center"
| view full details about a container || <pre>docker inspect containerid</pre>
||
|- align="center"
| start shell inside daemonized container ||
<pre>docker exec -it f28eb1af539d bash
To exit: <CTL>+p, <CTL>+q (typing 'exit' will kill the container)
</pre>
||
|- align="center"
| Run program from within the image without parameters || <pre>docker run -it ubuntu:18.04_tau4 python</pre>
|| Add to the Singularity file:
<pre>
%apprun python
exec python ""${@}""
</pre>
Build the singularity image:
<pre>sudo singularity build ubuntu_18.04_tau2.simg Singfile</pre>
Run the program:
<pre>singularity run --app python ubuntu_18.04_tau4.simg</pre>
|- align="center"
| Run program from within the image with parameters || <pre>docker run -it ubuntu:18.04_tau4 python -c "print('hello world')"</pre>
|| Add to the Singularity file:
<pre>
%apprun python
exec python "${@}"
</pre>
Build the singularity image:<pre>sudo singularity build ubuntu_18.04_tau2.simg Singfile</pre>
Run the program: <pre>singularity run --app python ubuntu_18.04_tau4.simg -c "print('hello world')"</pre>
|- align="center"
| Add help to image || || Add to the Singularity file:
<pre>
%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
</pre>
Build the singularity image: <pre>sudo singularity build ubuntu_18.04_tau2.simg Singfile</pre>
View the help: <pre>singularity help ubuntu_18.04_tau4.simg</pre>
|}

[[Category:Servers:Linux operational tasks]]

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Levk: 1 revision imported

hpcwiki>Dvory at 07:28, 23 February 2021