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nf-core / modules

Repository to host tool-specific module files for the Nextflow DSL2 community!
https://nf-co.re/modules
MIT License
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Caused by: java.nio.channels.OverlappingFileLockException #6664

Open edmundmiller opened 1 month ago

edmundmiller commented 1 month ago

When tests are run in CI or locally using conda the tests fail with:

  Caused by:
    java.nio.channels.OverlappingFileLockException

Caused by: https://github.com/nf-core/modules/pull/6600

Previous issues

edmundmiller commented 1 month ago

Options I see

edmundmiller commented 1 month ago

Alright confirmed that https://github.com/nf-core/modules/actions/runs/10926649144 doesn't seem to fail from an initial test standpoint, AND it's forward progress so it has my vote.

maxulysse commented 1 month ago

Sounds perfect to me

SPPearce commented 1 month ago

Yep, lets give it a go, we wanted to move to that anyway.

apeltzer commented 1 month ago

Any news on this fella? ;-) #6662 sits there and waiting :-P

SPPearce commented 1 month ago

Yep, I think we give this a go and revert if everything breaks.

maxulysse commented 1 month ago

https://github.com/nf-core/modules/pull/6685

maxulysse commented 3 weeks ago

https://github.com/nf-core/modules/pull/6798

edmundmiller commented 5 days ago

Why did this not break when we wrote everything in the conda line before environment ymls?

ewels commented 4 days ago

Now hoping that we can fix this in Nextflow: https://github.com/nextflow-io/nextflow/issues/5485

ewels commented 4 days ago

Fixed in https://github.com/nextflow-io/nextflow/pull/5489 - any additional testing by folks very welcome!