- Mail original -
> De: "Charles Plessy"
> À: "debian-med"
> Envoyé: Vendredi 10 Janvier 2020 07:36:12
> Objet: Running Debian Med through Singularity.
> Hi all,
>
> long time no post,
>
> happy new year !
>
> At work, our cluster is running CentOS... but it has Singularity
> installed.
>
> I just updated the Debian wiki to add instructions on how to create an
> image with Blends metapackages such as med-cloud:
>
> https://wiki.debian.org/singularity#Example_3:_Build_a_larger_image_from_scratch
>
> Next step is perhaps to find an easy way to make stable images with
> all the backports of the Debian Med bioinformatics tools installed...
Hi,
there is the biocontainers [0] initiative (which I am part of...) , that takes
debianmed tools (among other tools) to create Docker and singularity images
(though singularity accept docker images). Docker images are hosted on
DockerHub.
I regularly take debian stable with backports to inject tools in biocontainers
github repo [1] , and it automatically create images for those (with other non
debian ones).
For example https://biocontainers.pro/#/tools/abacas , image has tag
v1.3.1-5-deb.
All *-deb* tags are created from debianmed.
Singularity images are available here:
https://containers.biocontainers.pro/s3/SingImgsRepo/ (when not too long to
answer)
[0] https://biocontainers.pro/#/registry
[1] https://github.com/biocontainers/containers
Olivier
>
> Have a nice day,
>
> Charles
>
> --
> Charles Plessy Akano, Uruma, Okinawa, Japan
> Debian Med packaging team http://www.debian.org/devel/debian-med
> Tooting from work, https://mastodon.technology/@charles_plessy
> Tooting from home, https://framapiaf.org/@charles_plessy
