Singularity is a popular container solution for HPC systems. It natively supports GPU and high performance networks in containers and is compatible with docker images. More info at: https://sylabs.io/docs/
Grid'5000 supports the Singularity containers: Singularity is available in the standard environment and it does not requires to run it as root.
Just run the
singularity command to use it. It can also be run in a OAR submission (none-interactive batch job). For instance:
The Singularity user documentation is available at https://sylabs.io/guides/3.5/user-guide. It describes the various ways to run programs inside a container and how to build your own container image (which requires to be root, but can be performed on your own laptop or on a Grid'5000 node using "sudo-g5k").
Using docker containers with Singularity
Singularity can also be used to start docker containers. For instance:
Running MPI programs in Singularity containers
MPI programs may be run in Singularity containers, by leveraging both the MPI implementation available in the host, i.e. a Grid'5000 physical node (which has a direct access to the high peformance network hardware if present), and the MPI library that must be installed inside the container.
MPI programs in the Singularity container can then be started using the the mpirun command on the host.
See https://sylabs.io/guides/3.5/user-guide/mpi.html for more information.
For instance, to submit such a MPI job under OAR, assuming your avec a Singularity image named
my_mpi_image.sif in your home directory, use:
Using GPUs in Singularity containers
GPUs available in the host can be made available inside the container by using the --nv option (for Nvidia GPUs only).
For instance, to start an interactive tensorflow environment with one GPU, first submit the job reserving 1 GPU:
Then on that node:
More info at: https://sylabs.io/guides/3.5/user-guide/gpu.html