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Renaming pipeline into spatialaxe#162

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heylf wants to merge 7 commits into
nf-core:devfrom
heylf:dev
Open

Renaming pipeline into spatialaxe#162
heylf wants to merge 7 commits into
nf-core:devfrom
heylf:dev

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@heylf
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@heylf heylf commented May 27, 2026

The initial base renaming was done with `nf-core pipeline snyc' using template v3.5.2.

A statement for the Atera data was included in the README.

PR checklist

  • Make sure your code lints (nf-core lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • Check pipeline again for missing name conversions
  • Change subway map for new name
  • Change logo for new name

@heylf heylf changed the title Dev Renaming pipeline into spatialaxe May 27, 2026
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heylf commented May 27, 2026

Do not merge or review yet because some stuff is and might still be missing.

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heylf commented May 27, 2026

Naming issue we have now is that some of the test data in nf-core is placed under spatialxe (e.g., https://raw.githubusercontent.com/nf-core/test-datasets/spatialxe/xenium_bundle.tar.gz). So the old pipeline name has to be kept now else the linting and testing breaks.

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heylf commented May 27, 2026

Test data branch will be renamed to solve the previous comment.

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