add sorted list of empty process resource specification to the

[KochTobi]

Add list of processes to base config

Currently there are resource definitions for cpu, mem and time in some but not in all configuration profiles.

I think it would be nice to have a sorted list of processes in the base.config file where each process defines its preferred resources. The maximal ressurces from the environment specific configuration profiles can then be used to check for limitation.

The list should contain all processes. If I missed something feel free to add them.

Also there is no configuration for the single processes yet. It would be great if we could come up with some sort of preferred resource demands and add them together (over time?)

PR checklist

• [x] PR is made against dev branch
• [ ] PR is a hotfix against master branch
• [x] This comment contains a description of changes (with reason)
• [ ] If you've fixed a bug or added code that should be tested, add tests!
• [ ] Ensure the test suite passes (./scripts/test.sh -p docker -t ALL).
• [ ] Documentation in docs is updated
• [ ] CHANGELOG.md is updated
• [ ] README.md is updated

Learn more about contributing: https://github.com/SciLifeLab/Sarek/blob/master/.github/CONTRIBUTING.md

[KochTobi]

I can't figure out what's wrong with my config. ERROR ~ Unknown config attribute process.withName:BuildWithDocker -- check config file: /home/travis/build/SciLifeLab/Sarek/nextflow.config

[maxulysse]

I'll check it out right now

[maxulysse]

I actually have no idea, but if you remove all of the process from build.nf, it seems to be working...

[KochTobi]

I actually have no idea, but if you remove all of the process from build.nf, it seems to be working...

That' strange. Should I remove them then?

[maxulysse]

Yes, you definitively can, this build.nf script is not really part of the pipeline

[maxulysse]

Closing, this this is handled differently since the port to nf-core