Any idea about the failure here given the useless error I d nf-core #tools

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Any idea about the failure here? given the useless...

# tools

Maxime Garcia

12/12/2025, 9:27 AM

Any idea about the failure here? given the useless error, I'd say it's a singularity config issue

Arthur

12/12/2025, 9:35 AM

Hmm, not sure what singularity would have to do with the error trying to find nft-utils?

Arthur

12/12/2025, 9:36 AM

Timeout error, so maybe just retry?

Maxime Garcia

12/12/2025, 10:17 AM

nft-utils?

Arthur

12/12/2025, 10:18 AM

Yeah, in one of the tests it was failing to get the plugin for some reason

Arthur

12/12/2025, 10:19 AM

I reran it and it worked but look at it now it's marked the "confirm nf-test pass" as passed despite failing shard tests haha

Arthur

12/12/2025, 10:20 AM

Oh wait, that's separate from the GPU ones so was probs a legit temporary issue with an http req to the registry

Eduard Casas

12/14/2025, 5:37 PM

following

Eduard Casas

12/16/2025, 5:20 PM

Bump. Ay thoughts?

Arthur

12/16/2025, 10:37 PM

Yeah on looking more closely the error seems obvious no? It's telling you that

apptainer exec

(I guess the CLI actually uses

apptainer

not

singularity

) has no

--gpus

argument. That's being set using the

containerOptions

and is new in this PR. If I remember rightly

singularity

uses

--nv

not

--gpus

and it is just a flag.

👍 1

Arthur

12/16/2025, 10:37 PM

containerOptions

should probably be gated by container engine like containers already are

👍 1

Eduard Casas

12/17/2025, 10:10 PM

Thanks for the comment, I fixed it here: https://github.com/nf-core/modules/pull/9309

👀 1

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