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Add manifest.diagram to nextflow.config - #540

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metro-maps
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Add manifest.diagram to nextflow.config#540
ewels wants to merge 1 commit into
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metro-maps

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@ewels

@ewels ewels commented Sep 11, 2026

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Adds the new manifest.diagram config attribute, pointing at the pipeline overview diagram.

See nf-core/tools#4460 for background: manifest.diagram gives a canonical location for the metro map, so that downstream consumers can find it. We'll use it for the nf-core website soon, for example. The new config option won't be released until Nextflow 26.10, but older versions ignore unknown manifest fields, so it's safe to set in any pipeline today.

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github-actions Bot commented Sep 11, 2026

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Warning

Newer version of the nf-core template is available.

Your pipeline is using an old version of the nf-core template: 4.0.3.
Please update your pipeline to the latest version.

For more documentation on how to update your pipeline, please see the Synchronisation documentation.

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github-actions Bot commented Sep 11, 2026

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nf-core pipelines lint overall result: Passed ✅ ⚠️

Posted for pipeline commit c8f3d07

+| ✅ 271 tests passed       |+
#| ❔   5 tests were ignored |#
#| ❔   1 tests had warnings |#
!| ❗   8 tests had warnings |!
Details

❗ Test warnings:

  • pipeline_todos - TODO string in nextflow.config: Optionally, you can add a pipeline-specific nf-core config at https://github.com/nf-core/configs
  • pipeline_todos - TODO string in nextflow.config: Update the field with the details of the contributors to your pipeline. New with Nextflow version 24.10.0
  • pipeline_todos - TODO string in main.nf: Optionally add in-text citation tools to this list.
  • pipeline_todos - TODO string in main.nf: Optionally add bibliographic entries to this list.
  • pipeline_todos - TODO string in main.nf: Only uncomment below if logic in toolCitationText/toolBibliographyText has been filled!
  • pipeline_todos - TODO string in CONTRIBUTING.md: Add any pipeline specific contribution guidelines here, such as coding styles, procedures, checklists etc.
  • pipeline_todos - TODO string in base.config: Check the defaults for all processes
  • pipeline_todos - TODO string in methods_description_template.yml: #Update the HTML below to your preferred methods description, e.g. add publication citation for this pipeline

❔ Tests ignored:

  • nextflow_config - Config default ignored: params.bamtools_filter_pe_config
  • nextflow_config - Config default ignored: params.bamtools_filter_se_config
  • files_unchanged - File ignored due to lint config: assets/nf-core-chipseq_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-chipseq_logo_dark.png
  • files_unchanged - File ignored due to lint config: .gitignore or .prettierignore

❔ Tests fixed:

✅ Tests passed:

Run details

  • nf-core/tools version 4.0.3
  • Run at 2026-09-11 14:58:35

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@ewels