Any plan to release a Singularity image?

[hukai916]

Hi there,

Just wondering if there is any plan to release a Singularity image? It would be extremely useful for HPC environments, as most HPC systems do not support Docker due to security concerns.

Thanks!

--Kai

[hydriniumh2]

In the meantime you can convert docker images to singularity relatively easily

sudo docker save docker.io/pinellolab/crisprme:latest -o crisprme-2.1.7.tar
sudo singularity build crisprme-2.1.7.img docker-archive://crisprme-2.1.7.tar

[hukai916]

It actually depends, sometimes it is better to create from a genuine Singularity recipe rather than converting from Docker image, especially when there are custom env variables.

Singularity can pull images directly from Dockerhub and convert them to Singularity images automatically, probably using the build command internally. However, like I said, I tested the auto-converted Singularity image and it keeps complaining about missing libraries or like.

Best,

[ManuelTgn]

Hi @hukai916,

Thank you for your interest in CRISPRme and for your suggestion regarding Singularity support.

We’ve created a Singularity definition file that allows you to build the CRISPRme image from scratch. You can find it in the v218 branch of the repository: (https://github.com/pinellolab/CRISPRme/tree/v218). Please feel free to try it out, and let us know how it works for you.

As we are not yet very experienced with the Singularity environment, any feedback, suggestions, or improvements you can provide would be greatly appreciated. We aim to officially support and distribute a stable Singularity image starting with the upcoming release (CRISPRme v2.1.8), which is expected in the next few weeks.

Thank you again for your input, and we look forward to hearing your thoughts.

Best,
Manuel