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Running Metfrag as Container fails #31

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meowcat opened this issue Feb 8, 2024 · 2 comments
Open

Running Metfrag as Container fails #31

meowcat opened this issue Feb 8, 2024 · 2 comments

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@meowcat
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meowcat commented Feb 8, 2024

The Metfrag tool runs fine when running with a local executor. However, when I use a Docker executor, Metfrag fails. The reason seems to be that it requires Python which is not included in quay.io/biocontainers/metfrag:2.4.5.

I imagine the fix would be to add a Python requirement in <requirements> and Galaxy would make a "mulled container", at least that's what I hope...

@meowcat
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meowcat commented Feb 8, 2024

Not even using the dynamic runner docker_dispatch to send non-container tools to local helps, since Metfrag believes it can run on docker.

@meowcat
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meowcat commented Feb 8, 2024

It can be "fixed" by adding a resubmit to local on any error in the job_conf.yml

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