Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

remove exit strategy for MANTA/STRELKA #882

Merged
merged 8 commits into from Jun 2, 2023
Merged

remove exit strategy for MANTA/STRELKA #882

merged 8 commits into from Jun 2, 2023

Conversation

maxulysse
Copy link
Member

PR checklist

  • This comment contains a description of changes (with reason).
  • If you've fixed a bug or added code that should be tested, add tests!
  • If you've added a new tool - have you followed the pipeline conventions in the contribution docs- [ ] If necessary, also make a PR on the nf-core/sarek branch on the nf-core/test-datasets repository.
  • Make sure your code lints (nf-core lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • Usage Documentation in docs/usage.md is updated.
  • Output Documentation in docs/output.md is updated.
  • CHANGELOG.md is updated.
  • README.md is updated (including new tool citations and authors/contributors).

@github-actions
Copy link

github-actions bot commented Dec 6, 2022 •
edited

nf-core lint overall result: Passed ✅

Posted for pipeline commit 313480b

+| ✅ 153 tests passed       |+
#| ❔   9 tests were ignored |#

❔ Tests ignored:

✅ Tests passed:

Run details

  • nf-core/tools version 2.8
  • Run at 2023-06-01 16:50:22

@FriederikeHanssen
Copy link
Contributor

The exit strategy 1 should stay

@maxulysse
Copy link
Member Author

The exit strategy 1 should stay

It messes up global reassignments.
But I can see why we want that to stay, but it need to go too...
Need to find a way...

@FriederikeHanssen
Copy link
Contributor

is there a way to make it additive? errorStartegy += ?

@maxulysse
Copy link
Member Author

The exit strategy 1 should stay

It messes up global reassignments. But I can see why we want that to stay, but it need to go too... Need to find a way...

I'll try, but not sure at all.
Anyhow, what do you think about removing most of the withName label selectors from base.config and add that in nf-core config in the awsbatch profile. Is that the one we use for the aws megatests?

This was referenced Jun 1, 2023
Merged
Merged
@maxulysse maxulysse merged commit 78b47df into dev Jun 2, 2023
45 checks passed
@maxulysse maxulysse deleted the maxulysse-patch-1 branch June 2, 2023 07:10
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers

@FriederikeHanssen FriederikeHanssen FriederikeHanssen approved these changes

@adamrtalbot adamrtalbot adamrtalbot approved these changes

Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.

None yet
3 participants
@maxulysse @FriederikeHanssen @adamrtalbot