Running Singularity on a HPC

[Nidhal Ghanmi]

Hi

does any one please have some experience with singularity installed and running on an HPC , I am doing this for the first time

envirement managed by Bright cluster , Redhat 7,9 and workload manager is PBS Pro

I am trying to make it work for local users , I think it is fine , but in some points , can not build images from definition file , getting this actually :

INFO:    Starting build...
FATAL:   While performing build: conveyor failed to get: error getting username and password: error reading JSON file "/run/user/0/containers/auth.json": open /run/user/0/containers/auth.json: permission denied

also is there any security issues regarding singularity usage ? as I saw a configuration names %setup can touch settings into local host

Thanks !

Nidhal

[Meng Tang]

Hi Nidhal,

I think you need sudo to build Singularity image, if you have root access.

Description in the this page might help: https://sylabs.io/guides/3.3/user-guide/build_a_container.html

"

$ sudo singularity build lolcow.sif lolcow.def

The command requires sudo just as installing software on your local machine requires root privileges.

"

Once you build the image, you can copy this image to all machines you intend to use the container. I think you don't need root access for most other operations on the container.

Best,

Meng Tang (Candice)

[Nidhal Ghanmi]

Heey

Thanks Meng

Got it fixed due to some cache issue

regards