Use custom objects

[edmundmiller]

• How to use custom objects and have tasks cached nextflow-io/nextflow#1934 (comment)
• Using custom objects with paths nextflow-io/nextflow#2085 (comment)
• https://nfcore.slack.com/archives/CE56GDKN0/p1643589837160289

Making an issue for tracking, hopefully I'll get some time to work on a PoC soon.

@drpatelh @mahesh-panchal @heuermh @nh13

[edmundmiller]

During nf-core modules install it should check for a lib/customobjects.groovy, and if it doesn't match the updated one, it should install it.

The lib/customobject.groovy will be added to the nf-core template, but checking for the file with nf-core modules install will allow non-nf-core pipelines to still use nf-core modules.

Thanks, @JoseEspinosa, for working with me on the idea!

[JoseEspinosa]

😄 That will be really cool stuff!

[nh13]

if it doesn't match the updated one, it should install it.

what does this mean?

[edmundmiller]

what does this mean?

Sorry, I see the alarm, it should add the file on the first nf-core modules install, just like modules.json. On subsequent nf-modules installs we'll add on a check to make sure the user hasn't updated the lib/customobjects.groovy(Probably call it nf-core-customobjects to keep it clear) and throw a warning that here be dragons if they choose to modify it themselves.

[jasmezz]

Hi there!

We’ve noticed there hasn’t been much activity here. Are you still planning on working on this?
If not, you can ignore this message and we’ll close your PR/issue in about 2 weeks.
If you think this is still relevant, you can also add it to the hackathon2023 project board.

Cheers
the nf-core maintainers