version.yml file in v4.0.20240214

[whottel]

Hello,

First of all thanks for all the improvements that you continue to make for grandeur.
We were testing v4.0.20240214 (run with Nextflow v 23.10.1 ) and noticed some issues with the versions.yml that is getting created. When running the pipeline, I see this versions.yml is created in the grandeur directory.

Not sure if this is intended to still be here, or if a cleanup step is not working properly.

For other users at our lab the pipeline is failing due to this file and is causing a nextflow error:

error_log.txt

[erinyoung]

Oh no!

versions.yml is something that all nf-core workflows have. They don't seem to run into errors and I should dig deeper into why.

I should have this fixed by next week!

[erinyoung]

It looks like I need to add saveAs: { filename -> filename.equals('versions.yml') ? null : filename }, to publishDir

[erinyoung]

@whottel , my apologies for taking so long with this!

This issue should now be resolved. Let me know if my assumption is incorrect!

[whottel]

No worries, thanks for the update!
In initial tests it all seems to be working fine on our end.