I am having an issue where I am getting different ...
# help
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I am having an issue where I am getting different behaviour between a GH codespace and a GA runner when testing eager. When I test locally and on GH codespaces using
nf-test test --profile +docker --tag test
, the test is completed successfully. However, when the commits get tested by the GA the GATK UnifiedGenotyper module fails: https://github.com/nf-core/eager/actions/runs/21064061754/job/60577190179?pr=1164. Is there a way to get the files from the runner, so I can debug more effectively? Is there some obvious way in which the runners differ from the codespace environment that could explain this behaviour? 🙈
It seems the mulled container created on biocontainers was too old/had some issues. I created a new container using sequera wave and updated the module to use those, and everything worked finally 🎉