Singularity Containers
Last updated
Last updated
Written for software version 2.5.2.
Singularity is a virtualization tool that allows users to containerize workflows, applications, and environments to allow for portability, customization, and reproducibility. Additionally, Singularity is integrated with the Message Passage Interface (MPI) to be used in High Performance Computing (HPC) systems as well as Virtual Machines (VMs) which enables a seamless workflow environment. Lastly, you may also utilize Docker containers with Singularity!
Note: These instructions are adapted from the .
A command line environment in Ubuntu or CentOS.
Software dependencies (these may be numerous):
Ubuntu
CentOS
The most up-to-date version is housed in a GitHub repository. The software is installed from the source. Use Git to clone the repository and run the following commands.
There are three primary ways to interact with a Singularity container.
Run: Creates an ephemeral container that runs a predefined script
singularity run lolcow.simg
or ./lolcow.simg
Shell: Supplies a command line prompt to interface with the container
singularity shell lolcow.simg
Execute: Sends a command into the container and provides output
singularity exec lolcow.simg
Congratulations! You have successfully deployed a Singularity container!
The following command executes the build
command, specifies the path and name of the container (lolcow.simg
), and provides the location of the container on the (shub://GodloveD/lolcow
).
As some next steps, navigate to the to learn more about the , and .