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

Added -profile wave to the template. #2941

Merged
merged 7 commits into from
May 2, 2024
Merged

Added -profile wave to the template. #2941

Show file tree
Hide file tree
Changes from 3 commits
Commits
Show all changes
7 commits
Select commit Hold shift + click to select a range
952ae66
Template: Add config profile 'wave'
ewels Apr 30, 2024
8e9b3e6
Move Wave above GitPod
ewels Apr 30, 2024
8875f10
Add 'singularity.ociAutoPull = true'
ewels Apr 30, 2024
6dc46f7
Harshil aligned and Maxime sorted
ewels Apr 30, 2024
ac5d1e8
Added 'apptainer.ociAutoPull'
ewels Apr 30, 2024
76ed900
Add minimum Nextflow version to the docs
ewels Apr 30, 2024
cc4e416
More @drpatelh alignment to satisfy @mashehu
ewels May 2, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 2 additions & 0 deletions nf_core/pipeline-template/docs/usage.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -163,6 +163,8 @@ If `-profile` is not specified, the pipeline will run locally and expect all sof
- A generic configuration profile to be used with [Charliecloud](https://hpc.github.io/charliecloud/)
- `apptainer`
- A generic configuration profile to be used with [Apptainer](https://apptainer.org/)
- `wave`
- A generic configuration profile to enable [Wave](https://seqera.io/wave/) containers. Use together with one of the above.
- `conda`
- A generic configuration profile to be used with [Conda](https://conda.io/docs/). Please only use Conda as a last resort i.e. when it's not possible to run the pipeline with Docker, Singularity, Podman, Shifter, Charliecloud, or Apptainer.

Expand Down
6 changes: 6 additions & 0 deletions nf_core/pipeline-template/nextflow.config
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -171,6 +171,12 @@ profiles {
shifter.enabled = false
charliecloud.enabled = false
}
wave {
wave.enabled = true
wave.strategy = 'conda,container'
wave.freeze = true
singularity.ociAutoPull = true
}
ewels marked this conversation as resolved.
Show resolved Hide resolved
gitpod {
executor.name = 'local'
executor.cpus = 4
Expand Down
Loading