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    Singularity / Apptainer

    A repository of definition files for building Singularity containers around the software applications, frameworks, and libraries you need to run on high-performance computing systems.

    Based on naked-singularity. Thanks M. Kandas

    Please note that since 2022 there is a Linux Foundation Version of singularity called apptainer. Currently developments are similar.

    Install Singularity / Apptainer

    Install Singularity/Apptainer on your Linux desktop, laptop, or virtual machine. You need root permissions to use and install the package. Although there is a unprivileged installation possible, here.

    Use the instructions from apptainer

    # Red Hat Based
sudo yum install -y epel-release
sudo yum install -y apptainer
# Ubuntu
sudo add-apt-repository -y ppa:apptainer/ppa
sudo apt update
sudo apt install -y apptainer

    prebuild binary releases

    If you can not find singularity or apptainer in your repos, there are prebuild packages available as well. Go to the github release singularity or apptainer page.

    # e.g. for Ubuntu
wget https://github.com/apptainer/apptainer/releases/download/v1.1.0/apptainer_1.1.0_amd64.deb
sudo dpkg -i apptainer_1.1.0_amd64.deb
# gives some errors of missing dependencies. solve running:
sudo apt-get -f install
# Retry and see that is completes successfully
sudo dpkg -i apptainer_1.1.0_amd64.deb
# done

    Build your first Singularity container from a definition file

    Build an Ubuntu Singularity container from one of the definition files available in this repository.

    sudo singularity build ubuntu.sif definition-files/ubuntu/Singularity.ubuntu-18.04

    Build your first Singularity container from a DockerHub

    Build an Ubuntu Singularity container from the DockerHub repository

    # Using Ubuntu 18.04
sudo singularity build ubuntu.sif docker://ubuntu:18.04
# Using Ubuntu 20.04
sudo singularity build ubuntu.sif docker://ubuntu:20.04

    Pull your first Singularity container from IMGW Sylab Cloud

    We try to build custom Singularity containers with signatures to help keeping track of changes and interoperability.

    # You need to do this only once.
# add the library (no login required)
singularity remote add --no-login sycloud cloud.sylabs.io
# make it the default one
singularity remote use sycloud
# check if you get access
singularity remote status
    INFO:    Checking status of default remote.
    SERVICE    STATUS  VERSION                 URI
    Builder    OK      v1.6.7-0-gebd61128      https://build.sylabs.io
    Consent    OK      v1.6.6-0-gd8f171e       https://auth.sylabs.io/consent
    Keyserver  OK      v1.18.9-0-g76cbd56      https://keys.sylabs.io
    Library    OK      v0.3.7-rc.2-0-gd7bd65e  https://library.sylabs.io
    Token      OK      v1.6.6-0-gd8f171e       https://auth.sylabs.io/token

    No authentication token set (logged out).
# Now pull the container
singularity pull ubuntu.sif library://mblaschek/imgw/ubuntu:20.04

    Note: With the pull command you do not need root access. Everybody can pull a container and execute it as ones own process.

    Inspiration

    There are more and more people trying to build/port software to containers and building recipes collections to share experience.