search

computational-metabolomics / metfrag-galaxy

Metfrag for Galaxy
GNU General Public License v3.0
3 stars 3 forks source link

Running Metfrag as Container fails #31

Open meowcat opened 8 months ago

meowcat commented 8 months ago

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 commented 8 months ago

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 commented 8 months ago

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